diff --git a/CHANGELOG.md b/CHANGELOG.md index 5720af2f..c8cedccf 100755 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -3,6 +3,8 @@ 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). +## 1.5.1dev (UNRELEASED) + ## 1.5.0 - 2024-08-12 ### `Added` diff --git a/assets/multiqc_config.yml b/assets/multiqc_config.yml index 5a5753e0..e694d1bf 100644 --- a/assets/multiqc_config.yml +++ b/assets/multiqc_config.yml @@ -1,8 +1,8 @@ report_comment: > - This report has been generated by the nf-core/demultiplex + This report has been generated by the nf-core/demultiplex analysis pipeline. For information about how to interpret these results, please see the - documentation. + documentation. report_section_order: "nf-core-demultiplex-methods-description": diff --git a/nextflow.config b/nextflow.config index 61daeaf7..ff2b855c 100755 --- a/nextflow.config +++ b/nextflow.config @@ -275,7 +275,7 @@ manifest { description = """Demultiplexing pipeline for Illumina sequencing data""" mainScript = 'main.nf' nextflowVersion = '!>=23.04.0' - version = '1.5.0' + version = '1.5.1dev' doi = '10.5281/zenodo.7153103' } diff --git a/tests/pipeline/bases2fastq.nf.test.snap b/tests/pipeline/bases2fastq.nf.test.snap index 5d27853c..fafbf06b 100644 --- a/tests/pipeline/bases2fastq.nf.test.snap +++ b/tests/pipeline/bases2fastq.nf.test.snap @@ -1,7 +1,7 @@ { "software_versions": { "content": [ - "{BASES2FASTQ={bases2fastq=1.8.0.1260801529, use subject to license available at elementbiosciences.com}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, UNTAR_FLOWCELL={untar=1.34}, Workflow={nf-core/demultiplex=v1.5.0}}" + "{BASES2FASTQ={bases2fastq=1.8.0.1260801529, use subject to license available at elementbiosciences.com}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, UNTAR_FLOWCELL={untar=1.34}, Workflow={nf-core/demultiplex=v1.5.1dev}}" ], "meta": { "nf-test": "0.9.0", diff --git a/tests/pipeline/bcl2fastq.nf.test.snap b/tests/pipeline/bcl2fastq.nf.test.snap index 790585a1..d2a9811c 100644 --- a/tests/pipeline/bcl2fastq.nf.test.snap +++ b/tests/pipeline/bcl2fastq.nf.test.snap @@ -1,7 +1,7 @@ { "software_versions": { "content": [ - "{BCL2FASTQ={bcl2fastq=2.20.0.422}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.0}}" + "{BCL2FASTQ={bcl2fastq=2.20.0.422}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.1dev}}" ], "meta": { "nf-test": "0.9.0", diff --git a/tests/pipeline/bclconvert.nf.test.snap b/tests/pipeline/bclconvert.nf.test.snap index 31d34736..7bbc0d74 100644 --- a/tests/pipeline/bclconvert.nf.test.snap +++ b/tests/pipeline/bclconvert.nf.test.snap @@ -28,7 +28,7 @@ }, "software_versions": { "content": [ - "{BCLCONVERT={bclconvert=4.3.6}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.0}}" + "{BCLCONVERT={bclconvert=4.3.6}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.1dev}}" ], "meta": { "nf-test": "0.8.4", diff --git a/tests/pipeline/fqtk.nf.test.snap b/tests/pipeline/fqtk.nf.test.snap index 61feca7a..c8bb14ec 100644 --- a/tests/pipeline/fqtk.nf.test.snap +++ b/tests/pipeline/fqtk.nf.test.snap @@ -11,7 +11,7 @@ }, "software_versions": { "content": [ - "{CSV2TSV={sed=4.8}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, FQTK={fqtk=0.2.1}, MD5SUM={md5sum=8.3}, UNTAR_FLOWCELL={untar=1.34}, Workflow={nf-core/demultiplex=v1.5.0}}" + "{CSV2TSV={sed=4.8}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, FQTK={fqtk=0.2.1}, MD5SUM={md5sum=8.3}, UNTAR_FLOWCELL={untar=1.34}, Workflow={nf-core/demultiplex=v1.5.1dev}}" ], "meta": { "nf-test": "0.9.0", diff --git a/tests/pipeline/kraken.nf.test.snap b/tests/pipeline/kraken.nf.test.snap index 148712c2..8bb4a483 100644 --- a/tests/pipeline/kraken.nf.test.snap +++ b/tests/pipeline/kraken.nf.test.snap @@ -63,7 +63,7 @@ }, "software_versions": { "content": [ - "{BCL2FASTQ={bcl2fastq=2.20.0.422}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, KRAKEN2={kraken2=2.1.3, pigz=2.8}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.0}}" + "{BCL2FASTQ={bcl2fastq=2.20.0.422}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, KRAKEN2={kraken2=2.1.3, pigz=2.8}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.1dev}}" ], "meta": { "nf-test": "0.9.0", diff --git a/tests/pipeline/mkfastq.nf.test.snap b/tests/pipeline/mkfastq.nf.test.snap index d1d28977..6b200b57 100644 --- a/tests/pipeline/mkfastq.nf.test.snap +++ b/tests/pipeline/mkfastq.nf.test.snap @@ -1,7 +1,7 @@ { "software_versions": { "content": [ - "{CELLRANGER_MKFASTQ={cellranger=8.0.0}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, UNTAR_FLOWCELL={untar=1.34}, Workflow={nf-core/demultiplex=v1.5.0}}" + "{CELLRANGER_MKFASTQ={cellranger=8.0.0}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, UNTAR_FLOWCELL={untar=1.34}, Workflow={nf-core/demultiplex=v1.5.1dev}}" ], "meta": { "nf-test": "0.9.0", diff --git a/tests/pipeline/sgdemux.nf.test.snap b/tests/pipeline/sgdemux.nf.test.snap index 4f0b2a1c..f31955ce 100644 --- a/tests/pipeline/sgdemux.nf.test.snap +++ b/tests/pipeline/sgdemux.nf.test.snap @@ -1,7 +1,7 @@ { "software_versions": { "content": [ - "{FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, SGDEMUX={sgdemux=1.1.1}, UNTAR_FLOWCELL={untar=1.34}, Workflow={nf-core/demultiplex=v1.5.0}}" + "{FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, SGDEMUX={sgdemux=1.1.1}, UNTAR_FLOWCELL={untar=1.34}, Workflow={nf-core/demultiplex=v1.5.1dev}}" ], "meta": { "nf-test": "0.9.0", diff --git a/tests/pipeline/skip_tools.nf.test.snap b/tests/pipeline/skip_tools.nf.test.snap index 5416560a..0f7a24be 100644 --- a/tests/pipeline/skip_tools.nf.test.snap +++ b/tests/pipeline/skip_tools.nf.test.snap @@ -1,7 +1,7 @@ { "software_versions_skip_trimming": { "content": [ - "{BCLCONVERT={bclconvert=4.3.6}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.0}}" + "{BCLCONVERT={bclconvert=4.3.6}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.1dev}}" ], "meta": { "nf-test": "0.9.0", @@ -115,7 +115,7 @@ }, "software_versions_skip_fastqc": { "content": [ - "{BCLCONVERT={bclconvert=4.3.6}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.0}}" + "{BCLCONVERT={bclconvert=4.3.6}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.1dev}}" ], "meta": { "nf-test": "0.9.0", @@ -125,7 +125,7 @@ }, "software_versions_skip_fastp_fastqc": { "content": [ - "{BCLCONVERT={bclconvert=4.3.6}, FALCO={falco=1.2.1}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.0}}" + "{BCLCONVERT={bclconvert=4.3.6}, FALCO={falco=1.2.1}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.1dev}}" ], "meta": { "nf-test": "0.9.0", @@ -135,7 +135,7 @@ }, "software_versions_skip_multiqc": { "content": [ - "{BCLCONVERT={bclconvert=4.3.6}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.0}}" + "{BCLCONVERT={bclconvert=4.3.6}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.1dev}}" ], "meta": { "nf-test": "0.9.0", @@ -145,7 +145,7 @@ }, "software_versions_skip_fastp": { "content": [ - "{BCLCONVERT={bclconvert=4.3.6}, FALCO={falco=1.2.1}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.0}}" + "{BCLCONVERT={bclconvert=4.3.6}, FALCO={falco=1.2.1}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.1dev}}" ], "meta": { "nf-test": "0.9.0", diff --git a/tests/pipeline/test_pe.nf.test.snap b/tests/pipeline/test_pe.nf.test.snap index 079f7fa9..e093685d 100644 --- a/tests/pipeline/test_pe.nf.test.snap +++ b/tests/pipeline/test_pe.nf.test.snap @@ -66,7 +66,7 @@ }, "software_versions": { "content": [ - "{BCL2FASTQ={bcl2fastq=2.20.0.422}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.0}}" + "{BCL2FASTQ={bcl2fastq=2.20.0.422}, FALCO={falco=1.2.1}, FASTP={fastp=0.23.4}, MD5SUM={md5sum=8.3}, Workflow={nf-core/demultiplex=v1.5.1dev}}" ], "meta": { "nf-test": "0.9.0",