From aec3a6650c0e14e5d310c61949e5db560fc26634 Mon Sep 17 00:00:00 2001 From: Florian De Temmerman Date: Tue, 30 Jul 2024 14:19:55 +0200 Subject: [PATCH 1/3] Fix conda version tag to use pixelator 0.18.2 --- CHANGELOG.md | 6 ++++++ modules/local/pixelator/collect_metadata.nf | 2 +- modules/local/pixelator/list_options.nf | 2 +- modules/local/pixelator/single-cell/amplicon/main.nf | 2 +- modules/local/pixelator/single-cell/analysis/main.nf | 2 +- modules/local/pixelator/single-cell/annotate/main.nf | 2 +- modules/local/pixelator/single-cell/collapse/main.nf | 2 +- modules/local/pixelator/single-cell/demux/main.nf | 2 +- modules/local/pixelator/single-cell/graph/main.nf | 2 +- modules/local/pixelator/single-cell/layout/main.nf | 2 +- modules/local/pixelator/single-cell/qc/main.nf | 2 +- modules/local/pixelator/single-cell/report/main.nf | 2 +- 12 files changed, 17 insertions(+), 11 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index fc8ae89..12c487c 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -3,6 +3,12 @@ The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/) and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html). +## [[1.3.1](https://github.com/nf-core/pixelator/releases/tag/1.3.0)] - 2024-07-17 + +### Enhancements & fixes + +- [[PR #107](https://github.com/nf-core/pixelator/pull/107)] - Fix conda version tag to use pixelator 0.18.2 + ## [[1.3.0](https://github.com/nf-core/pixelator/releases/tag/1.3.0)] - 2024-07-17 ### Enhancements & fixes diff --git a/modules/local/pixelator/collect_metadata.nf b/modules/local/pixelator/collect_metadata.nf index a6b5872..0817d80 100644 --- a/modules/local/pixelator/collect_metadata.nf +++ b/modules/local/pixelator/collect_metadata.nf @@ -6,7 +6,7 @@ process PIXELATOR_COLLECT_METADATA { label 'process_single' cache false - conda "bioconda::pixelator=0.17.1" + conda "bioconda::pixelator=0.18.2" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/pixelator:0.18.2--pyhdfd78af_0' : 'biocontainers/pixelator:0.18.2--pyhdfd78af_0' }" diff --git a/modules/local/pixelator/list_options.nf b/modules/local/pixelator/list_options.nf index 86a0340..880be7c 100644 --- a/modules/local/pixelator/list_options.nf +++ b/modules/local/pixelator/list_options.nf @@ -2,7 +2,7 @@ process PIXELATOR_LIST_OPTIONS { label 'process_single' - conda "bioconda::pixelator=0.17.1" + conda "bioconda::pixelator=0.18.2" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/pixelator:0.18.2--pyhdfd78af_0' : 'biocontainers/pixelator:0.18.2--pyhdfd78af_0' }" diff --git a/modules/local/pixelator/single-cell/amplicon/main.nf b/modules/local/pixelator/single-cell/amplicon/main.nf index d7b5bcf..87b5095 100644 --- a/modules/local/pixelator/single-cell/amplicon/main.nf +++ b/modules/local/pixelator/single-cell/amplicon/main.nf @@ -3,7 +3,7 @@ process PIXELATOR_AMPLICON { label 'process_low' - conda "bioconda::pixelator=0.17.1" + conda "bioconda::pixelator=0.18.2" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/pixelator:0.18.2--pyhdfd78af_0' : 'biocontainers/pixelator:0.18.2--pyhdfd78af_0' }" diff --git a/modules/local/pixelator/single-cell/analysis/main.nf b/modules/local/pixelator/single-cell/analysis/main.nf index ede72a1..077fc1f 100644 --- a/modules/local/pixelator/single-cell/analysis/main.nf +++ b/modules/local/pixelator/single-cell/analysis/main.nf @@ -2,7 +2,7 @@ process PIXELATOR_ANALYSIS { tag "$meta.id" label 'process_medium' - conda "bioconda::pixelator=0.17.1" + conda "bioconda::pixelator=0.18.2" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/pixelator:0.18.2--pyhdfd78af_0' : 'biocontainers/pixelator:0.18.2--pyhdfd78af_0' }" diff --git a/modules/local/pixelator/single-cell/annotate/main.nf b/modules/local/pixelator/single-cell/annotate/main.nf index b66cf87..48e9719 100644 --- a/modules/local/pixelator/single-cell/annotate/main.nf +++ b/modules/local/pixelator/single-cell/annotate/main.nf @@ -3,7 +3,7 @@ process PIXELATOR_ANNOTATE { label 'process_high' - conda "bioconda::pixelator=0.17.1" + conda "bioconda::pixelator=0.18.2" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/pixelator:0.18.2--pyhdfd78af_0' : 'biocontainers/pixelator:0.18.2--pyhdfd78af_0' }" diff --git a/modules/local/pixelator/single-cell/collapse/main.nf b/modules/local/pixelator/single-cell/collapse/main.nf index a34ecd1..0fbe600 100644 --- a/modules/local/pixelator/single-cell/collapse/main.nf +++ b/modules/local/pixelator/single-cell/collapse/main.nf @@ -2,7 +2,7 @@ process PIXELATOR_COLLAPSE { tag "$meta.id" label 'process_medium' - conda "bioconda::pixelator=0.17.1" + conda "bioconda::pixelator=0.18.2" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/pixelator:0.18.2--pyhdfd78af_0' : 'biocontainers/pixelator:0.18.2--pyhdfd78af_0' }" diff --git a/modules/local/pixelator/single-cell/demux/main.nf b/modules/local/pixelator/single-cell/demux/main.nf index d1bda81..29e9e76 100644 --- a/modules/local/pixelator/single-cell/demux/main.nf +++ b/modules/local/pixelator/single-cell/demux/main.nf @@ -3,7 +3,7 @@ process PIXELATOR_DEMUX { label 'process_medium' - conda "bioconda::pixelator=0.17.1" + conda "bioconda::pixelator=0.18.2" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/pixelator:0.18.2--pyhdfd78af_0' : 'biocontainers/pixelator:0.18.2--pyhdfd78af_0' }" diff --git a/modules/local/pixelator/single-cell/graph/main.nf b/modules/local/pixelator/single-cell/graph/main.nf index c4e4bb6..b26b8e4 100644 --- a/modules/local/pixelator/single-cell/graph/main.nf +++ b/modules/local/pixelator/single-cell/graph/main.nf @@ -3,7 +3,7 @@ process PIXELATOR_GRAPH { label 'process_high' - conda "bioconda::pixelator=0.17.1" + conda "bioconda::pixelator=0.18.2" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/pixelator:0.18.2--pyhdfd78af_0' : 'biocontainers/pixelator:0.18.2--pyhdfd78af_0' }" diff --git a/modules/local/pixelator/single-cell/layout/main.nf b/modules/local/pixelator/single-cell/layout/main.nf index 8173aab..ad2524b 100644 --- a/modules/local/pixelator/single-cell/layout/main.nf +++ b/modules/local/pixelator/single-cell/layout/main.nf @@ -3,7 +3,7 @@ process PIXELATOR_LAYOUT { label 'process_medium' - conda "bioconda::pixelator=0.17.1" + conda "bioconda::pixelator=0.18.2" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/pixelator:0.18.2--pyhdfd78af_0' : 'biocontainers/pixelator:0.18.2--pyhdfd78af_0' }" diff --git a/modules/local/pixelator/single-cell/qc/main.nf b/modules/local/pixelator/single-cell/qc/main.nf index f2082c8..2184363 100644 --- a/modules/local/pixelator/single-cell/qc/main.nf +++ b/modules/local/pixelator/single-cell/qc/main.nf @@ -3,7 +3,7 @@ process PIXELATOR_QC { label 'process_medium' - conda "bioconda::pixelator=0.17.1" + conda "bioconda::pixelator=0.18.2" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/pixelator:0.18.2--pyhdfd78af_0' : 'biocontainers/pixelator:0.18.2--pyhdfd78af_0' }" diff --git a/modules/local/pixelator/single-cell/report/main.nf b/modules/local/pixelator/single-cell/report/main.nf index 1a6bbba..11d73c2 100644 --- a/modules/local/pixelator/single-cell/report/main.nf +++ b/modules/local/pixelator/single-cell/report/main.nf @@ -3,7 +3,7 @@ process PIXELATOR_REPORT { label 'process_low' - conda "bioconda::pixelator=0.17.1" + conda "bioconda::pixelator=0.18.2" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/pixelator:0.18.2--pyhdfd78af_0' : 'biocontainers/pixelator:0.18.2--pyhdfd78af_0' }" From 934e555828d2dda60534ea770e7e487eca0413ec Mon Sep 17 00:00:00 2001 From: Florian De Temmerman Date: Tue, 30 Jul 2024 14:32:59 +0200 Subject: [PATCH 2/3] Bump version and update CHANGELOG --- CHANGELOG.md | 2 +- nextflow.config | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 12c487c..846c82b 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -3,7 +3,7 @@ The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/) and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html). -## [[1.3.1](https://github.com/nf-core/pixelator/releases/tag/1.3.0)] - 2024-07-17 +## [[1.3.1](https://github.com/nf-core/pixelator/releases/tag/1.3.1)] - 2024-07-30 ### Enhancements & fixes diff --git a/nextflow.config b/nextflow.config index 63de05a..6285245 100644 --- a/nextflow.config +++ b/nextflow.config @@ -313,7 +313,7 @@ manifest { description = """Pipeline for analysis of Molecular Pixelation assays""" mainScript = 'main.nf' nextflowVersion = '!>=23.04.0' - version = '1.3.0' + version = '1.3.1' doi = '10.1101/2023.06.05.543770' } From 5e1851199e40a78645b7474632e103c4eb41a4c9 Mon Sep 17 00:00:00 2001 From: Florian De Temmerman Date: Wed, 31 Jul 2024 11:53:54 +0200 Subject: [PATCH 3/3] Update release date in CHANGELOG --- CHANGELOG.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 846c82b..090e2ff 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -3,7 +3,7 @@ The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/) and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html). -## [[1.3.1](https://github.com/nf-core/pixelator/releases/tag/1.3.1)] - 2024-07-30 +## [[1.3.1](https://github.com/nf-core/pixelator/releases/tag/1.3.1)] - 2024-07-31 ### Enhancements & fixes