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Set a default registry outside of profile scope #1019

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merged 2 commits into from
May 11, 2023
Merged

Set a default registry outside of profile scope #1019

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df876fe
Set a default registry outside of profile scope
maxulysse May 11, 2023
fdbfcfb
update CHANGELOG
maxulysse May 11, 2023
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1 change: 1 addition & 0 deletions CHANGELOG.md
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Expand Up @@ -38,6 +38,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
- [#968](https://github.com/nf-core/sarek/pull/968) - Update all modules
- [#1014](https://github.com/nf-core/sarek/pull/1014) - `snpeff_db` is now only the `db` version and not `genome.db`
- [#1015](https://github.com/nf-core/sarek/pull/1015) - Increase default value for `--nucleotides_per_second` to `200000` resulting in 21 groups for `GATK.GRCh38`
- [#1019](https://github.com/nf-core/sarek/pull/1019) - Set a default registry outside of profile scope

### Fixed

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8 changes: 6 additions & 2 deletions nextflow.config
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Expand Up @@ -175,7 +175,6 @@ profiles {
charliecloud.enabled = false
conda.enabled = false
docker.enabled = true
docker.registry = 'quay.io'
docker.userEmulation = { params.use_gatk_spark ? false : true }.call()
podman.enabled = false
shifter.enabled = false
Expand All @@ -200,7 +199,6 @@ profiles {
conda.enabled = false
docker.enabled = false
podman.enabled = true
podman.registry = 'quay.io'
shifter.enabled = false
singularity.enabled = false
}
Expand Down Expand Up @@ -289,6 +287,12 @@ env {
// Capture exit codes from upstream processes when piping
process.shell = ['/bin/bash', '-euo', 'pipefail']

// 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
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