From 74a2ae2c3bfd8778e4de4678e9e024a3ea94d306 Mon Sep 17 00:00:00 2001 From: Mohammed Faizal Eeman Mootor <68152431+Faizal-Eeman@users.noreply.github.com> Date: Mon, 12 Dec 2022 11:12:38 -0800 Subject: [PATCH] Release `4.0.1` (#85) * Update metadata.yaml * Update nextflow.config * Update CHANGELOG.md * Update README.md * update GH registry in CICD base * Update CHANGELOG.md Co-authored-by: Mootor --- .github/workflows/cicd-base.yaml | 2 +- CHANGELOG.md | 4 ++++ README.md | 2 +- metadata.yaml | 2 +- nextflow.config | 2 +- 5 files changed, 8 insertions(+), 4 deletions(-) diff --git a/.github/workflows/cicd-base.yaml b/.github/workflows/cicd-base.yaml index d70cd937..58672a0b 100644 --- a/.github/workflows/cicd-base.yaml +++ b/.github/workflows/cicd-base.yaml @@ -22,4 +22,4 @@ jobs: # Run CICD-base - name: CICD-base - uses: docker://blcdsdockerregistry/cicd-base:latest + uses: docker://ghcr.io/uclahs-cds/cicd-base:latest diff --git a/CHANGELOG.md b/CHANGELOG.md index a4748c62..af131c05 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -4,6 +4,10 @@ All notable changes to the call-gSV pipeline. --- ## [Unreleased] + +--- + +## [4.0.1] - 2022-12-12 ### Changed - Parameterize Docker registry - Use `ghcr.io/uclahs-cds` as default registry diff --git a/README.md b/README.md index 94bb5ebb..1d39f73a 100644 --- a/README.md +++ b/README.md @@ -280,7 +280,7 @@ Note, per Nature the following benchmarks exist for the human genome: ### Validation Tool -Included is a template for validating your input files. For more information on the tool check out: https://github.com/uclahs-cds/tool-validate-nf +Included is a template for validating your input files. For more information on the tool check out: https://github.com/uclahs-cds/public-tool-PipeVal --- diff --git a/metadata.yaml b/metadata.yaml index 3483f8b2..516b74b9 100644 --- a/metadata.yaml +++ b/metadata.yaml @@ -5,4 +5,4 @@ maintainers: "Boutros Lab Infrastructure BoutrosLabInfrastructure@mednet.ucla.ed languages: ["Nextflow", "Docker"] dependencies: ["Java", "Nextflow", "Docker"] references: "https://confluence.mednet.ucla.edu/display/BOUTROSLAB/Guide+to+Nextflow" -tools: ["Delly:v1.1.3", "Manta:v1.6.0", "BCFtools:v1.15.1", "VCFtools:v0.1.16", "RTG-tools:v3.12", "Validate-nf:v2.1.5"] +tools: ["Delly:v1.1.3", "Manta:v1.6.0", "BCFtools:v1.15.1", "VCFtools:v0.1.16", "RTG-tools:v3.12", "PipeVal:v3.0.0"] diff --git a/nextflow.config b/nextflow.config index 4d2a7f9e..cc715462 100644 --- a/nextflow.config +++ b/nextflow.config @@ -4,5 +4,5 @@ manifest { name = 'call-gSV' author = 'Yu Pan, Tim Sanders, Yael Berkovich, Mohammed Faizal Eeman Mootor' description = 'A pipeline to call germline structural variants utilizing Delly and Manta' - version = '4.0.0' + version = '4.0.1' }