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Switching images from GHCR to DockerHub #4

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merged 2 commits into from
Jul 8, 2024
Merged

Switching images from GHCR to DockerHub #4

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3eeba69
Updating task name and adding commented out module option
tefirman Jul 3, 2024
dc08a8e
Switching from GHCR to DockerHub
tefirman Jul 3, 2024
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3 changes: 2 additions & 1 deletion helloDockerHostname/helloDockerHostname.wdl
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Expand Up @@ -4,7 +4,7 @@ version 1.0

#### WORKFLOW DEFINITION

workflow HelloSingularityHostname {
workflow HelloDockerHostname {
call Hostname {
}

Expand Down Expand Up @@ -32,6 +32,7 @@ task Hostname {
cpu: 1
memory: "1 GB"
docker: "ubuntu:latest"
# modules: "Python/3.7.4-foss-2019b-fh1"
}

parameter_meta {
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6 changes: 3 additions & 3 deletions variantCalling/variantCalling.wdl
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Expand Up @@ -53,9 +53,9 @@ workflow PanelBwaGatk4Annovar {
ReferenceData reference_genome
}

String gatk_docker = "ghcr.io/getwilds/gatk:4.3.0.0"
String annovar_docker = "ghcr.io/getwilds/annovar:${reference_genome.ref_name}"
String bwa_docker = "ghcr.io/getwilds/bwa:0.7.17"
String gatk_docker = "getwilds/gatk:4.3.0.0"
String annovar_docker = "getwilds/annovar:${reference_genome.ref_name}"
String bwa_docker = "getwilds/bwa:0.7.17"

scatter (sample in sample_batch){
File bam = sample.bam_file
Expand Down