Marc Perry
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Latest activity by Marc Perry
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Marc Perry commented,
This sounds extremely helpful/useful, any update?
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Marc Perry commented,
Hi Jason, Yes, I ran it both as a WDL workflow using Cromwell, and simply in the Docker container, and they both used over 600 GB of RAM. However I think this has now drawn my attention to the fac...
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Marc Perry commented,
Hi Jason, Sure, since I thought I was having a problem with limited RAM memory, I configured a GCP VM that was optimized for memory: m1-megamem-96 (96 vCPUs, 1,433.6 GB memory) (!) But when I run...
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Marc Perry commented,
Hi Jason, That job died with this error: "stderr for job `usherPlaceNewSamples.Extract:NA:1` contained one of the `memory-retry-error-keys: [OutOfMemory,Killed]` specified in the Cromwell config. J...
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Marc Perry commented,
Hi Jason, Sure thing. I will change those settings and re-run. I do run it with call caching enabled, but we are pulling data from California Department of Public Health SARS-CoV-2 sequence datab...
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Marc Perry commented,
Hi Jason, I tried to provide this information on OCT-12 by replying to your Email but perhaps that method does not work the way I imagined. This workspace already has that user added as a Reader: u...
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Marc Perry created a post,
Disparity between RAM usage on GCP VM compared to Terra Workflow
I have a workflow task; when it runs on Terra it keeps dying with the out-of-memory error. I have maxRetries set, and I have the 'Retry with more memory' option set, and have tried different recom...
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Marc Perry created a post,
Can a Terra Workflow use a GCP Compute Engine compute-optimized c2-standard machine type?
Hi, It seems pretty clear that the default machine type for Terra workflows is what GCP calls n1-standard, and that if you specify cpuPlatform: "Intel Cascade Lake", well that might give you an n2-...
- Marc Perry
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