From d89b14291ac6d02864c98387898f592c5d7027a2 Mon Sep 17 00:00:00 2001 From: Jonathan Manning Date: Thu, 19 Oct 2023 09:11:48 +0100 Subject: [PATCH] Bump shinyngs versions --- conf/modules.config | 4 ++-- modules.json | 8 ++++---- modules/nf-core/shinyngs/app/main.nf | 6 +++--- modules/nf-core/shinyngs/staticdifferential/main.nf | 6 +++--- modules/nf-core/shinyngs/staticexploratory/main.nf | 6 +++--- modules/nf-core/shinyngs/validatefomcomponents/main.nf | 6 +++--- 6 files changed, 18 insertions(+), 18 deletions(-) diff --git a/conf/modules.config b/conf/modules.config index 60e0629d..3245195e 100644 --- a/conf/modules.config +++ b/conf/modules.config @@ -390,8 +390,8 @@ process { } withName: RMARKDOWNNOTEBOOK { - conda = "bioconda::r-shinyngs=1.8.2" - container = { "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/r-shinyngs:1.8.2--r43hdfd78af_0' : 'quay.io/biocontainers/r-shinyngs:1.8.2--r43hdfd78af_0' }" } + conda "bioconda::r-shinyngs=1.8.4" + container = { "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/r-shinyngs:1.8.4--r43hdfd78af_0' : 'biocontainers/r-shinyngs:1.8.4--r43hdfd78af_0' }" } publishDir = [ path: { "${params.outdir}/report" }, mode: params.publish_dir_mode, diff --git a/modules.json b/modules.json index c6fce10f..102495bb 100644 --- a/modules.json +++ b/modules.json @@ -72,22 +72,22 @@ }, "shinyngs/app": { "branch": "master", - "git_sha": "707c31e838cb77198e30d8eeb138728ce09a4dd2", + "git_sha": "1b2fa2138849ac09b3d5c1e25ed70650ec1ebd7b", "installed_by": ["modules"] }, "shinyngs/staticdifferential": { "branch": "master", - "git_sha": "022afb76b0fc7e304b0061a648f8f6cef03bba95", + "git_sha": "1b2fa2138849ac09b3d5c1e25ed70650ec1ebd7b", "installed_by": ["modules"] }, "shinyngs/staticexploratory": { "branch": "master", - "git_sha": "022afb76b0fc7e304b0061a648f8f6cef03bba95", + "git_sha": "1b2fa2138849ac09b3d5c1e25ed70650ec1ebd7b", "installed_by": ["modules"] }, "shinyngs/validatefomcomponents": { "branch": "master", - "git_sha": "022afb76b0fc7e304b0061a648f8f6cef03bba95", + "git_sha": "1b2fa2138849ac09b3d5c1e25ed70650ec1ebd7b", "installed_by": ["modules"] }, "untar": { diff --git a/modules/nf-core/shinyngs/app/main.nf b/modules/nf-core/shinyngs/app/main.nf index 60ea6a79..9cdf5cb1 100644 --- a/modules/nf-core/shinyngs/app/main.nf +++ b/modules/nf-core/shinyngs/app/main.nf @@ -13,10 +13,10 @@ process SHINYNGS_APP { // // Those values must then be set in your Nextflow secrets. - conda "bioconda::r-shinyngs=1.8.1" + conda "bioconda::r-shinyngs=1.8.4" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'https://depot.galaxyproject.org/singularity/r-shinyngs:1.8.1--r43hdfd78af_0' : - 'biocontainers/r-shinyngs:1.8.1--r43hdfd78af_0' }" + 'https://depot.galaxyproject.org/singularity/r-shinyngs:1.8.4--r43hdfd78af_0' : + 'biocontainers/r-shinyngs:1.8.4--r43hdfd78af_0' }" input: tuple val(meta), path(sample), path(feature_meta), path(assay_files) // Experiment-level info diff --git a/modules/nf-core/shinyngs/staticdifferential/main.nf b/modules/nf-core/shinyngs/staticdifferential/main.nf index d2bbbc8c..e25edf5b 100644 --- a/modules/nf-core/shinyngs/staticdifferential/main.nf +++ b/modules/nf-core/shinyngs/staticdifferential/main.nf @@ -2,10 +2,10 @@ process SHINYNGS_STATICDIFFERENTIAL { tag "$meta.id" label 'process_single' - conda "bioconda::r-shinyngs=1.8.2" + conda "bioconda::r-shinyngs=1.8.4" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'https://depot.galaxyproject.org/singularity/r-shinyngs:1.8.2--r43hdfd78af_0' : - 'biocontainers/r-shinyngs:1.8.2--r43hdfd78af_0' }" + 'https://depot.galaxyproject.org/singularity/r-shinyngs:1.8.4--r43hdfd78af_0' : + 'biocontainers/r-shinyngs:1.8.4--r43hdfd78af_0' }" input: tuple val(meta), path(differential_result) // Differential info: contrast and differential stats diff --git a/modules/nf-core/shinyngs/staticexploratory/main.nf b/modules/nf-core/shinyngs/staticexploratory/main.nf index 851325bf..4f5cbc33 100644 --- a/modules/nf-core/shinyngs/staticexploratory/main.nf +++ b/modules/nf-core/shinyngs/staticexploratory/main.nf @@ -2,10 +2,10 @@ process SHINYNGS_STATICEXPLORATORY { tag "$meta.id" label 'process_single' - conda "bioconda::r-shinyngs=1.8.2" + conda "bioconda::r-shinyngs=1.8.4" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'https://depot.galaxyproject.org/singularity/r-shinyngs:1.8.2--r43hdfd78af_0' : - 'biocontainers/r-shinyngs:1.8.2--r43hdfd78af_0' }" + 'https://depot.galaxyproject.org/singularity/r-shinyngs:1.8.4--r43hdfd78af_0' : + 'biocontainers/r-shinyngs:1.8.4--r43hdfd78af_0' }" input: tuple val(meta), path(sample), path(feature_meta), path(assay_files) diff --git a/modules/nf-core/shinyngs/validatefomcomponents/main.nf b/modules/nf-core/shinyngs/validatefomcomponents/main.nf index bdfb19af..0e63c89a 100644 --- a/modules/nf-core/shinyngs/validatefomcomponents/main.nf +++ b/modules/nf-core/shinyngs/validatefomcomponents/main.nf @@ -2,10 +2,10 @@ process SHINYNGS_VALIDATEFOMCOMPONENTS { tag "$sample" label 'process_single' - conda "bioconda::r-shinyngs=1.8.2" + conda "bioconda::r-shinyngs=1.8.4" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'https://depot.galaxyproject.org/singularity/r-shinyngs:1.8.2--r43hdfd78af_0' : - 'biocontainers/r-shinyngs:1.8.2--r43hdfd78af_0' }" + 'https://depot.galaxyproject.org/singularity/r-shinyngs:1.8.4--r43hdfd78af_0' : + 'biocontainers/r-shinyngs:1.8.4--r43hdfd78af_0' }" input: tuple val(meta), path(sample), path(assay_files)