From f9a5afe7a8f2c30b62b9e5757412d2bdc866b38a Mon Sep 17 00:00:00 2001 From: Sorel Fitz-Gibbon Date: Thu, 2 Mar 2023 12:46:24 -0800 Subject: [PATCH 1/5] update changelog and nextflow.config --- CHANGELOG.md | 3 +++ nextflow.config | 2 +- 2 files changed, 4 insertions(+), 1 deletion(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 50ed9d3e..21c009bb 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -5,8 +5,11 @@ 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). ## [Unreleased] + +## [6.0.0] - 2023-03-02 ### Added - Add NF-test + ### Changed - Update to use `MuSE` v2.0.1 with `MuSE sump` parallelization - Update `MuSE` retry add memory to 48GB diff --git a/nextflow.config b/nextflow.config index 6b1e04d3..61479ecb 100644 --- a/nextflow.config +++ b/nextflow.config @@ -9,6 +9,6 @@ manifest { nextflowVersion = '>=20.07.1' author = 'Yuan Zhe (Caden) Bugh, Mao Tian, Sorel Fitz-Gibbon' homePage = 'https://github.com/uclahs-cds/pipeline-call-sSNV' - version = '6.0.0-rc.1' + version = '6.0.0' name = 'call-sSNV' } From cb75ab74bc80b3e1ac50b7f1778232b976f66df0 Mon Sep 17 00:00:00 2001 From: Sorel Fitz-Gibbon Date: Thu, 2 Mar 2023 12:46:24 -0800 Subject: [PATCH 2/5] update changelog and nextflow.config with new version number --- CHANGELOG.md | 2 ++ nextflow.config | 2 +- 2 files changed, 3 insertions(+), 1 deletion(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 0984fed1..b459083d 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -6,6 +6,8 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0 ## [Unreleased] +## [6.0.0] - 2023-03-02 + ### Added - Add Mutect2 flow chart - Add plantUML action and MuSE flow chart diff --git a/nextflow.config b/nextflow.config index 6b1e04d3..61479ecb 100644 --- a/nextflow.config +++ b/nextflow.config @@ -9,6 +9,6 @@ manifest { nextflowVersion = '>=20.07.1' author = 'Yuan Zhe (Caden) Bugh, Mao Tian, Sorel Fitz-Gibbon' homePage = 'https://github.com/uclahs-cds/pipeline-call-sSNV' - version = '6.0.0-rc.1' + version = '6.0.0' name = 'call-sSNV' } From 4030e0c7c06027dfcb63bb93ffb3c5ffa65a4e6f Mon Sep 17 00:00:00 2001 From: Sorel Fitz-Gibbon Date: Wed, 5 Apr 2023 11:27:41 -0700 Subject: [PATCH 3/5] update date of release --- CHANGELOG.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index b459083d..b214e6bb 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -6,7 +6,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0 ## [Unreleased] -## [6.0.0] - 2023-03-02 +## [6.0.0] - 2023-04-05 ### Added - Add Mutect2 flow chart From d06b65694526059dec5a9ff2a391dbf38ff1f66b Mon Sep 17 00:00:00 2001 From: Sorel Fitz-Gibbon <3223552+sorelfitzgibbon@users.noreply.github.com> Date: Wed, 5 Apr 2023 11:29:14 -0700 Subject: [PATCH 4/5] Update CHANGELOG.md update date of release --- CHANGELOG.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 21c009bb..dfc3b045 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -6,7 +6,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0 ## [Unreleased] -## [6.0.0] - 2023-03-02 +## [6.0.0] - 2023-04-05 ### Added - Add NF-test From 9af9f973a320c60af2ff7ed40a073424bee6ae74 Mon Sep 17 00:00:00 2001 From: Sorel Fitz-Gibbon <3223552+sorelfitzgibbon@users.noreply.github.com> Date: Thu, 6 Apr 2023 16:35:45 -0700 Subject: [PATCH 5/5] Update CHANGELOG.md --- CHANGELOG.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 36272850..c90633bd 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -14,7 +14,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0 - Add NF-test ### Changed -- Update LearnRaadOrientationModel allocated memory +- Update LearnReadOrientationModel allocated memory and cpus - Update to GATK v4.4.0.0 - Update `MuSE` retry add memory to 48GB - Changed `output_dir` to `output_dir_base` (`methods.config` and `main.nf`)