
Samuel Terkper Ahuno
Activity overview
Latest activity by Samuel Terkper Ahuno
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Samuel Terkper Ahuno created a post,
Do you want to abort this job? Y/N
Dear Terra Support, please could you make `Abort` a two step process and the option of checking `don't ask me again?` i think i mistakenly aborted some jobs. thanks S
- Samuel Terkper Ahuno
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Samuel Terkper Ahuno commented,
Hi Samantha (she/her) i confirm cnv-somatic-pair workflow version 4.1.7.0 works with corresonponding gatk docker 4.1.7.0 thanks S
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Samuel Terkper Ahuno commented,
Hi Samantha (she/her) just to be sure we not missing anything I repeated cnv-somatic-wokflow with same parameters; Repeated subissions with "us.gcr.io/broad-gatk/gatk:4.1.8.0" ; Submission ID- 1...
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Samuel Terkper Ahuno commented,
Hi Samantha (she/her) I have shared workspace with GROUP_FireCloud-Support@firecloud.org email; - failed - gatk 4.1.7.0; submission-id: b5b9e7a1-bbd6-4fda-a356-96ae196c0370 - failed - gatk:4.1.8...
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Samuel Terkper Ahuno created a post,
cnv-somatic workflow not compatible with gatk latest versions (4.1.7.0 above)
Hi, Has anyone had success running cnv-somatic workflow with latest versions of gatk? fails at `PlotDenoisedCopyRatiosNormal` Task when run with docker gatk 4.1.8.1 , 4.1.8.0 & 4.1.7.0 Error; CNVSo...
- Samuel Terkper Ahuno
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Samuel Terkper Ahuno commented,
I think it's now resolved, I run workflows paired-fastq-to-ubam, preprocessing for variant discovery and haplotype-caller on WES 216 samples yesterday evening without any errors (except user input ...
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Samuel Terkper Ahuno commented,
i spotted where the error is coming from; it appears the work JointCalling workflow is not compliant with latest versions of gatk (4.1.6.0) and 4.1.5.0. and throws the error A USER ERROR has occurr...
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Samuel Terkper Ahuno created a post,
GenotypeGVCFs error; A USER ERROR has occurred: use-new-qual-calculator is not a recognized option
Hello Terra, I am running JointCalling on Whole Exome samples using clone of this workflow however the GenotypeGVCFs tasks keeps failing with this error in all the shards; `A USER ERROR has occur...
- Samuel Terkper Ahuno
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Samuel Terkper Ahuno commented,
Hi Jason Cerrato is there a particular reason why jointGenotyping has been capped at >= 50 samples? although, gatk best practices recommends a joint-calling for larger cohort i still need to perfo...
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Samuel Terkper Ahuno commented,
thanks Jason! I'll give it a try.
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