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Bump util Docker image version for Ubuntu 24.04 base upgrade #289

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Merged
adthrasher merged 2 commits into from
Jan 21, 2026
Merged

Bump util Docker image version for Ubuntu 24.04 base upgrade #289

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513b951
Initial plan
Copilot Jan 21, 2026
75902ba
Update util Docker image version from 3.0.1 to 3.0.2
Copilot Jan 21, 2026
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2 changes: 1 addition & 1 deletion data_structures/flag_filter.wdl
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Original file line number Diff line number Diff line change
Expand Up @@ -107,7 +107,7 @@ task validate_string_is_12bit_int {
>>>

runtime {
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
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6 changes: 3 additions & 3 deletions data_structures/read_group.wdl
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Expand Up @@ -138,7 +138,7 @@ task get_read_groups {

runtime {
disks: "~{disk_size_gb} GB"
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
Expand Down Expand Up @@ -356,7 +356,7 @@ task validate_read_group {
>>>

runtime {
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
Expand Down Expand Up @@ -412,7 +412,7 @@ task inner_read_group_to_string {
}

runtime {
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
2 changes: 1 addition & 1 deletion docker/util/package.json
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@@ -1,4 +1,4 @@
{
"name": "util",
"version": "3.0.1"
"version": "3.0.2"
}
2 changes: 1 addition & 1 deletion tools/htseq.wdl
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Expand Up @@ -190,7 +190,7 @@ task calc_tpm {
runtime {
memory: "4 GB"
disks: "10 GB"
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
2 changes: 1 addition & 1 deletion tools/md5sum.wdl
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Expand Up @@ -35,7 +35,7 @@ task compute_checksum {

runtime {
disks: "~{disk_size_gb} GB"
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
14 changes: 7 additions & 7 deletions tools/util.wdl
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Expand Up @@ -41,7 +41,7 @@ task download {

runtime {
disks: "~{disk_size_gb} GB"
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
Expand Down Expand Up @@ -80,7 +80,7 @@ task split_string {
}

runtime {
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
Expand Down Expand Up @@ -128,7 +128,7 @@ task calc_feature_lengths {
runtime {
memory: "16 GB"
disks: "~{disk_size_gb} GB"
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
Expand Down Expand Up @@ -247,7 +247,7 @@ task unpack_tarball {

runtime {
disks: "~{disk_size_gb} GB"
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
Expand Down Expand Up @@ -351,7 +351,7 @@ task global_phred_scores {
runtime {
memory: "4 GB"
disks: "~{disk_size_gb} GB"
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
Expand Down Expand Up @@ -398,7 +398,7 @@ task check_fastq_and_rg_concordance {
>>>

runtime {
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
Expand Down Expand Up @@ -462,7 +462,7 @@ task split_fastq {
cpu: ncpu
memory: "4 GB"
disks: "~{disk_size_gb} GB"
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
2 changes: 1 addition & 1 deletion workflows/dnaseq/dnaseq-standard.wdl
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Expand Up @@ -158,7 +158,7 @@ task parse_input {
>>>

runtime {
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
2 changes: 1 addition & 1 deletion workflows/qc/quality-check-standard.wdl
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Expand Up @@ -547,7 +547,7 @@ task parse_input {
}

runtime {
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
2 changes: 1 addition & 1 deletion workflows/rnaseq/rnaseq-standard.wdl
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Expand Up @@ -181,7 +181,7 @@ task parse_input {
>>>

runtime {
container: "ghcr.io/stjudecloud/util:3.0.1"
container: "ghcr.io/stjudecloud/util:3.0.2"
maxRetries: 1
}
}
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