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update KrakenUniq version to the latest #3873

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merged 2 commits into from
Sep 27, 2023
Merged

update KrakenUniq version to the latest #3873

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7bd10ae
update the version from 1.0.2 to 1.0.4
LilyAnderssonLee Sep 27, 2023
ea90af2
change ram_chunk_size type into string
LilyAnderssonLee Sep 27, 2023
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6 changes: 3 additions & 3 deletions modules/nf-core/krakenuniq/build/main.nf
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Original file line number Diff line number Diff line change
Expand Up @@ -2,10 +2,10 @@ process KRAKENUNIQ_BUILD {
tag "$meta.id"
label 'process_medium'

conda "bioconda::krakenuniq=1.0.2"
conda "bioconda::krakenuniq=1.0.4"
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://depot.galaxyproject.org/singularity/krakenuniq:1.0.2--pl5321h19e8d03_0':
'biocontainers/krakenuniq:1.0.2--pl5321h19e8d03_0' }"
'https://depot.galaxyproject.org/singularity/krakenuniq:1.0.4--pl5321h19e8d03_0':
'biocontainers/krakenuniq:1.0.4--pl5321h19e8d03_0' }"

input:
tuple val(meta), path(custom_library_dir, stageAs: "library/*"), path(custom_taxonomy_dir, stageAs: "taxonomy"), path(custom_seqid2taxid)
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6 changes: 3 additions & 3 deletions modules/nf-core/krakenuniq/download/main.nf
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@@ -1,10 +1,10 @@
process KRAKENUNIQ_DOWNLOAD {
label 'process_low'

conda "bioconda::krakenuniq=1.0.2"
conda "bioconda::krakenuniq=1.0.4"
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://depot.galaxyproject.org/singularity/krakenuniq:1.0.2--pl5321h19e8d03_0':
'biocontainers/krakenuniq:1.0.2--pl5321h19e8d03_0' }"
'https://depot.galaxyproject.org/singularity/krakenuniq:1.0.4--pl5321h19e8d03_0':
'biocontainers/krakenuniq:1.0.4--pl5321h19e8d03_0' }"

input:
val pattern
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6 changes: 3 additions & 3 deletions modules/nf-core/krakenuniq/preloadedkrakenuniq/main.nf
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Expand Up @@ -2,10 +2,10 @@ process KRAKENUNIQ_PRELOADEDKRAKENUNIQ {
tag "$meta.id"
label 'process_high'

conda "bioconda::krakenuniq=1.0.2"
conda "bioconda::krakenuniq=1.0.4"
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://depot.galaxyproject.org/singularity/krakenuniq:1.0.2--pl5321h19e8d03_0':
'biocontainers/krakenuniq:1.0.2--pl5321h19e8d03_0' }"
'https://depot.galaxyproject.org/singularity/krakenuniq:1.0.4--pl5321h19e8d03_0':
'biocontainers/krakenuniq:1.0.4--pl5321h19e8d03_0' }"

input:
tuple val(meta), path(fastqs)
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2 changes: 1 addition & 1 deletion modules/nf-core/krakenuniq/preloadedkrakenuniq/meta.yml
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Expand Up @@ -27,7 +27,7 @@ input:
type: directory
description: KrakenUniq database
- ram_chunk_size:
type: val
type: string
description: Amount of maximum amount of RAM each chunk of database that should be loaded at any one time
pattern: "*GB"
- save_output_fastqs:
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