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Bump shinyngs modules #5881

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Jun 25, 2024
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2 changes: 1 addition & 1 deletion modules/nf-core/shinyngs/app/environment.yml
Original file line number Diff line number Diff line change
Expand Up @@ -4,4 +4,4 @@ channels:
- bioconda
- defaults
dependencies:
- bioconda::r-shinyngs=1.8.8
- bioconda::r-shinyngs=2.0.0
4 changes: 2 additions & 2 deletions modules/nf-core/shinyngs/app/main.nf
Original file line number Diff line number Diff line change
Expand Up @@ -15,8 +15,8 @@ process SHINYNGS_APP {

conda "${moduleDir}/environment.yml"
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://depot.galaxyproject.org/singularity/r-shinyngs:1.8.8--r43hdfd78af_0' :
'biocontainers/r-shinyngs:1.8.8--r43hdfd78af_0' }"
'https://depot.galaxyproject.org/singularity/r-shinyngs:2.0.0--r43hdfd78af_0' :
'biocontainers/r-shinyngs:2.0.0--r43hdfd78af_0' }"

input:
tuple val(meta), path(sample), path(feature_meta), path(assay_files) // Experiment-level info
Expand Down
12 changes: 6 additions & 6 deletions modules/nf-core/shinyngs/app/tests/main.nf.test.snap
Original file line number Diff line number Diff line change
Expand Up @@ -4,41 +4,41 @@
"data.rds",
"app.R:md5,d41d8cd98f00b204e9800998ecf8427e",
[
"versions.yml:md5,9a3135ae8ff362a9671b280dcc5781da"
"versions.yml:md5,a6c3af4b2fd261b4049c92449ea6bb4d"
]
],
"meta": {
"nf-test": "0.8.4",
"nextflow": "23.10.1"
},
"timestamp": "2024-05-03T08:47:11.758494"
"timestamp": "2024-06-25T09:43:49.880332"
},
"mouse - multi matrix": {
"content": [
"data.rds",
"app.R:md5,bedcfc45b6cdcc2b8fe3627987e2b17a",
[
"versions.yml:md5,9a3135ae8ff362a9671b280dcc5781da"
"versions.yml:md5,a6c3af4b2fd261b4049c92449ea6bb4d"
]
],
"meta": {
"nf-test": "0.8.4",
"nextflow": "23.10.1"
},
"timestamp": "2024-05-03T08:46:37.144273"
"timestamp": "2024-06-25T09:43:15.455356"
},
"mouse - single matrix": {
"content": [
"data.rds",
"app.R:md5,bedcfc45b6cdcc2b8fe3627987e2b17a",
[
"versions.yml:md5,9a3135ae8ff362a9671b280dcc5781da"
"versions.yml:md5,a6c3af4b2fd261b4049c92449ea6bb4d"
]
],
"meta": {
"nf-test": "0.8.4",
"nextflow": "23.10.1"
},
"timestamp": "2024-05-03T08:46:57.227288"
"timestamp": "2024-06-25T09:43:35.309081"
}
}
Original file line number Diff line number Diff line change
Expand Up @@ -4,4 +4,4 @@ channels:
- bioconda
- defaults
dependencies:
- bioconda::r-shinyngs=1.8.8
- bioconda::r-shinyngs=2.0.0
4 changes: 2 additions & 2 deletions modules/nf-core/shinyngs/staticdifferential/main.nf
Original file line number Diff line number Diff line change
Expand Up @@ -4,8 +4,8 @@ process SHINYNGS_STATICDIFFERENTIAL {

conda "${moduleDir}/environment.yml"
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://depot.galaxyproject.org/singularity/r-shinyngs:1.8.8--r43hdfd78af_0' :
'biocontainers/r-shinyngs:1.8.8--r43hdfd78af_0' }"
'https://depot.galaxyproject.org/singularity/r-shinyngs:2.0.0--r43hdfd78af_0' :
'biocontainers/r-shinyngs:2.0.0--r43hdfd78af_0' }"

input:
tuple val(meta), path(differential_result) // Differential info: contrast and differential stats
Expand Down
2 changes: 1 addition & 1 deletion modules/nf-core/shinyngs/staticexploratory/environment.yml
Original file line number Diff line number Diff line change
Expand Up @@ -4,4 +4,4 @@ channels:
- bioconda
- defaults
dependencies:
- bioconda::r-shinyngs=1.8.8
- bioconda::r-shinyngs=2.0.0
4 changes: 2 additions & 2 deletions modules/nf-core/shinyngs/staticexploratory/main.nf
Original file line number Diff line number Diff line change
Expand Up @@ -4,8 +4,8 @@ process SHINYNGS_STATICEXPLORATORY {

conda "${moduleDir}/environment.yml"
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://depot.galaxyproject.org/singularity/r-shinyngs:1.8.8--r43hdfd78af_0' :
'biocontainers/r-shinyngs:1.8.8--r43hdfd78af_0' }"
'https://depot.galaxyproject.org/singularity/r-shinyngs:2.0.0--r43hdfd78af_0' :
'biocontainers/r-shinyngs:2.0.0--r43hdfd78af_0' }"

input:
tuple val(meta), path(sample), path(feature_meta), path(assay_files)
Expand Down
Original file line number Diff line number Diff line change
Expand Up @@ -8,14 +8,14 @@
"pca3d.png",
"sample_dendrogram.png",
[
"versions.yml:md5,526fbe61b95ad3a722d7470ca1874ca3"
"versions.yml:md5,e04025d7790ddfa09ba5bd719cfba8c7"
]
],
"meta": {
"nf-test": "0.8.4",
"nextflow": "23.10.1"
},
"timestamp": "2024-05-03T08:48:20.908769"
"timestamp": "2024-06-25T10:24:53.456056"
},
"mouse - defaults": {
"content": [
Expand All @@ -26,14 +26,14 @@
"pca3d.png",
"sample_dendrogram.png",
[
"versions.yml:md5,526fbe61b95ad3a722d7470ca1874ca3"
"versions.yml:md5,e04025d7790ddfa09ba5bd719cfba8c7"
]
],
"meta": {
"nf-test": "0.8.4",
"nextflow": "23.10.1"
},
"timestamp": "2024-05-03T08:48:06.589763"
"timestamp": "2024-06-25T10:24:39.111271"
},
"mouse - specify log": {
"content": [
Expand All @@ -44,14 +44,14 @@
"pca3d.png",
"sample_dendrogram.png",
[
"versions.yml:md5,526fbe61b95ad3a722d7470ca1874ca3"
"versions.yml:md5,e04025d7790ddfa09ba5bd719cfba8c7"
]
],
"meta": {
"nf-test": "0.8.4",
"nextflow": "23.10.1"
},
"timestamp": "2024-05-03T08:48:41.352789"
"timestamp": "2024-06-25T10:25:14.646472"
},
"mouse - html": {
"content": [
Expand All @@ -67,13 +67,13 @@
false,
false,
[
"versions.yml:md5,526fbe61b95ad3a722d7470ca1874ca3"
"versions.yml:md5,e04025d7790ddfa09ba5bd719cfba8c7"
]
],
"meta": {
"nf-test": "0.8.4",
"nextflow": "23.10.1"
},
"timestamp": "2024-05-03T08:49:04.969108"
"timestamp": "2024-06-25T10:25:38.256352"
}
}
Original file line number Diff line number Diff line change
Expand Up @@ -4,4 +4,4 @@ channels:
- bioconda
- defaults
dependencies:
- bioconda::r-shinyngs=1.8.8
- bioconda::r-shinyngs=2.0.0
4 changes: 2 additions & 2 deletions modules/nf-core/shinyngs/validatefomcomponents/main.nf
Original file line number Diff line number Diff line change
Expand Up @@ -4,8 +4,8 @@ process SHINYNGS_VALIDATEFOMCOMPONENTS {

conda "${moduleDir}/environment.yml"
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://depot.galaxyproject.org/singularity/r-shinyngs:1.8.8--r43hdfd78af_0' :
'biocontainers/r-shinyngs:1.8.8--r43hdfd78af_0' }"
'https://depot.galaxyproject.org/singularity/r-shinyngs:2.0.0--r43hdfd78af_0' :
'biocontainers/r-shinyngs:2.0.0--r43hdfd78af_0' }"

input:
tuple val(meta), path(sample), path(assay_files)
Expand Down
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