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[DO NOT MERGE] [TSPS-682] Update beagle docker image #1722

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[DO NOT MERGE] [TSPS-682] Update beagle docker image #1722

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ba26e46
update beagle docker image for testing
salonishah11 Nov 17, 2025
e3eea8b
use image from base-version branch
salonishah11 Nov 19, 2025
614a2c5
use image with different git command
salonishah11 Nov 20, 2025
2824304
use image with git hash in dockerfile
salonishah11 Nov 21, 2025
43b9d07
correct beagle jar name
salonishah11 Nov 21, 2025
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8 changes: 4 additions & 4 deletions tasks/wdl/ImputationBeagleTasks.wdl
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Original file line number Diff line number Diff line change
Expand Up @@ -307,7 +307,7 @@ task Phase {
Int start
Int end

String beagle_docker = "us.gcr.io/broad-gotc-prod/imputation-beagle:1.1.0-17Dec24.224-1758207261"
String beagle_docker = "us.gcr.io/broad-dsde-methods/sshah/beagle_jar_test:d820c4e_version_1"
Int cpu = 8 # This parameter is used as the nthreads input to Beagle which is part of how we make it determinstic. Changing this value may change the output generated by the tool
Int memory_mb = 32000 # value depends on chunk size, the number of samples in ref and target panel
Int disk_size_gb = ceil((3 * size(dataset_vcf, "GiB")) + size(ref_panel_bref3, "GiB")) + 10
Expand All @@ -319,7 +319,7 @@ task Phase {
set -e -o pipefail

java -ea -XX:MaxRAMPercentage=90.0 -XX:MinRAMPercentage=90.0 -XX:-UseCompressedOops \
-jar /usr/gitc/beagle.17Dec24.224.jar \
-jar /usr/gitc/beagle.d820c4e.jar \
gt=~{dataset_vcf} \
ref=~{ref_panel_bref3} \
map=~{genetic_map_file} \
Expand Down Expand Up @@ -356,7 +356,7 @@ task Impute {
Int end
Boolean impute_with_allele_probabilities

String beagle_docker = "us.gcr.io/broad-gotc-prod/imputation-beagle:1.1.0-17Dec24.224-1758207261"
String beagle_docker = "us.gcr.io/broad-dsde-methods/sshah/beagle_jar_test:d820c4e_version_1"
Int cpu = 8 # This parameter is used as the nthreads input to Beagle which is part of how we make it determinstic. Changing this value may change the output generated by the tool
Int memory_mb = 32000 # value depends on chunk size, the number of samples in ref and target panel
Int disk_size_gb = ceil((3 * size(dataset_vcf, "GiB")) + size(ref_panel_bref3, "GiB")) + 10
Expand All @@ -366,7 +366,7 @@ task Impute {
set -e -o pipefail

java -ea -XX:MaxRAMPercentage=90.0 -XX:MinRAMPercentage=90.0 -XX:-UseCompressedOops \
-jar /usr/gitc/beagle.17Dec24.224.jar \
-jar /usr/gitc/beagle.d820c4e.jar \
gt=~{dataset_vcf} \
ref=~{ref_panel_bref3} \
map=~{genetic_map_file} \
Expand Down
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