Beri
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Recent activity by Beri
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The message is referring to the following line: runtime_memory=if defined(runtime_memory) then '$runtime_memory' else 8 + ceil(size(input_bam, 'G') / 2) The declaration made in the call input block...
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Hi Daniel, I asked the team and here is their suggestion: According to the log files it looks like the neoantigenPredictionType1 task froze in the middle of the script execution, somewhere at the...
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bshifaw, thanks
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Hi Alex, Is it possible to share the whole workflow?
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Hi Daniel, We'll have a look on our end and get back to you.
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Kenneth Westerman Jason C. made this comment to another user with a related error. "This sounds related to an older bug that was patched late January. This bug inadvertently prepended the workflow...
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The requirements in the workflow WDL header states ## Requirements/expectations :## - Pair-end sequencing data in unmapped BAM (uBAM) format## - One or more read groups, one per uBAM file, all bel...
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Yes, you'll just need to change the workflow attribute configurations to hg38 reference data. You can find hg38 equivalent reference files for mutect2 here: https://console.cloud.google.com/storage...
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Hi Elizabeth, What container are you using?You probably won't be able to edit the default docker containers but perhaps you can create a custom container based on the defaults and add the required ...
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If your trying to access TCGA data files like bam or fastq then its most likely due to the Service Incident, it's in the process of being resolved. As a workaround you could download the TCGA files...
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