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Set a default docker registry outside of profile scope. #1021

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merged 3 commits into from
May 11, 2023
Merged

Set a default docker registry outside of profile scope. #1021

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a350ca1
Set a default docker registry outside of profile scope.
robsyme May 11, 2023
969be28
Update nextflow.config
maxulysse May 11, 2023
deffccb
Update nextflow.config
maxulysse May 11, 2023
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11 changes: 9 additions & 2 deletions nextflow.config
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Original file line number Diff line number Diff line change
Expand Up @@ -168,7 +168,6 @@ profiles {
}
docker {
docker.enabled = true
docker.registry = 'quay.io'
docker.userEmulation = true
conda.enabled = false
singularity.enabled = false
Expand All @@ -192,7 +191,6 @@ profiles {
}
podman {
podman.enabled = true
podman.registry = 'quay.io'
conda.enabled = false
docker.enabled = false
singularity.enabled = false
Expand Down Expand Up @@ -263,6 +261,15 @@ env {
JULIA_DEPOT_PATH = "/usr/local/share/julia"
}

// Capture exit codes from upstream processes when piping
process.shell = ['/bin/bash', '-euo', 'pipefail']

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// Set default registry for Docker and Podman independent of -profile
// Will not be used unless Docker / Podman are enabled
// Set to your registry if you have a mirror of containers
docker.registry = 'quay.io'
podman.registry = 'quay.io'

def trace_timestamp = new java.util.Date().format( 'yyyy-MM-dd_HH-mm-ss')
timeline {
enabled = true
Expand Down