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Update 20231024 #243

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merged 3 commits into from
Oct 24, 2023
Merged

Update 20231024 #243

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0c26a73
Update to version 3.8.20231024
erinyoung Oct 24, 2023
e4a7c6c
Update to version 1.4.7-2023-10-24
erinyoung Oct 24, 2023
fdb4841
Update artic to 1.2.4-1.11.1
erinyoung Oct 24, 2023
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4 changes: 2 additions & 2 deletions modules/artic.nf
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Original file line number Diff line number Diff line change
Expand Up @@ -2,7 +2,7 @@ process artic {
tag "${sample}"
label "process_high"
publishDir "${params.outdir}", mode: 'copy'
container 'quay.io/uphl/artic:1.2.4-1.9.4-1'
container 'quay.io/uphl/artic:1.2.4-1.11.1'

//#UPHLICA maxForks 10
//#UPHLICA errorStrategy { task.attempt < 2 ? 'retry' : 'ignore'}
Expand Down Expand Up @@ -61,7 +61,7 @@ process artic {
process artic_read_filtering {
tag "${sample}"
publishDir "${params.outdir}", mode: 'copy'
container 'quay.io/uphl/artic:1.2.4-1.9.4-1'
container 'quay.io/uphl/artic:1.2.4-1.11.1'
label "process_single"

//#UPHLICA maxForks 10
Expand Down
4 changes: 2 additions & 2 deletions modules/freyja.nf
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Expand Up @@ -3,7 +3,7 @@ process freyja {
label "process_medium"
errorStrategy { task.attempt < 2 ? 'retry' : 'ignore'}
publishDir "${params.outdir}", mode: 'copy'
container 'quay.io/uphl/freyja:1.4.7-2023-10-17'
container 'quay.io/uphl/freyja:1.4.7-2023-10-24'

//#UPHLICA maxForks 10
//#UPHLICA pod annotation: 'scheduler.illumina.com/presetSize', value: 'standard-xlarge'
Expand Down Expand Up @@ -57,7 +57,7 @@ process freyja_aggregate {
tag "Aggregating results from freyja"
label "process_single"
publishDir "${params.outdir}", mode: 'copy'
container 'quay.io/uphl/freyja:1.4.7-2023-10-17'
container 'quay.io/uphl/freyja:1.4.7-2023-10-24'

//#UPHLICA maxForks 10
//#UPHLICA errorStrategy { task.attempt < 2 ? 'retry' : 'ignore'}
Expand Down
2 changes: 1 addition & 1 deletion nextflow.config
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Expand Up @@ -5,7 +5,7 @@ manifest {
name = 'Cecret'
author = 'Erin Young'
homePage = 'https://github.com/UPHL-BioNGS/Cecret'
version = 'v3.8.20231017'
version = 'v3.8.20231024'
defaultBranch = 'master'
recurseSubmodules = false
description = 'Reference-based consensus creation'
Expand Down
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