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WX-1443 Adopt gcloud storage for localization only #7359

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merged 18 commits into from
Feb 1, 2024

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Testing conducted with local Cromwell running against Life Sciences with the following machine shape, localizing and delocalizing a 95 GB Chromosome 2 reference file [0].

  runtime {
    docker: "rockylinux:9"
    disks: "local-disk 2500 SSD"
    cpu: 16
    memory: "32 GB"
    cpuPlatform: "Intel Ice Lake"
  }

Screenshot 2024-01-12 at 10 41 06

The result in Life Sciences above was confirmed manually using a similarly configured GCE VM via SSH.

> gcloud storage --billing-project=broad-dsde-cromwell-dev cp gs://genomics-public-data/1000-genomes/vcf/ALL.chr2.integrated_phase1_v3.20101123.snps_indels_svs.genotypes.vcf .
Copying gs://genomics-public-data/1000-genomes/vcf/ALL.chr2.integrated_phase1_v3.20101123.snps_indels_svs.genotypes.vcf to file://./ALL.chr2.integrated_phase1_v3.20101123.snps_indels_svs.genotypes.vcf
  Completed files 1/1 | 95.4GiB/95.4GiB | 519.7MiB/s                                                                                                                                                                                           

Average throughput: 1.2GiB/s

Corresponding config synchronization: https://github.com/broadinstitute/terra-helmfile/pull/4987

[0] gs://genomics-public-data/1000-genomes/vcf/ALL.chr2.integrated_phase1_v3.20101123.snps_indels_svs.genotypes.vcf

@aednichols aednichols requested a review from a team as a code owner January 24, 2024 04:36
@aednichols aednichols merged commit 13236ff into develop Feb 1, 2024
33 of 34 checks passed
@aednichols aednichols deleted the aen_wx_767_download_only branch February 1, 2024 14:16
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3 participants