From 9871df23784f8e2fe649fbe8926b19b37149af0a Mon Sep 17 00:00:00 2001 From: Sorel Fitz-Gibbon Date: Wed, 15 May 2024 16:10:59 -0700 Subject: [PATCH 1/2] change version number --- CHANGELOG.md | 2 ++ nextflow.config | 2 +- 2 files changed, 3 insertions(+), 1 deletion(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 7c46b640..a6647909 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] +## [8.1.0] - 2024-05-15 + ### Added - Add workflow to build and publish documentation to GitHub Pages - Add workflow to run Nextflow configuration regression tests diff --git a/nextflow.config b/nextflow.config index 13d0d8db..d1a875df 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 = '8.0.0' + version = '8.1.0' name = 'call-sSNV' } From e03067153573d9fd24387cc7290380751570f979 Mon Sep 17 00:00:00 2001 From: yashpatel6 Date: Wed, 15 May 2024 23:18:54 +0000 Subject: [PATCH 2/2] Autofix Nextflow configuration regression tests --- test/configtest-F16.json | 12 ++++++------ test/configtest-F32.json | 12 ++++++------ 2 files changed, 12 insertions(+), 12 deletions(-) diff --git a/test/configtest-F16.json b/test/configtest-F16.json index 9983ed58..3b8a9d3f 100644 --- a/test/configtest-F16.json +++ b/test/configtest-F16.json @@ -43,7 +43,7 @@ "mainScript": "main.nf", "name": "call-sSNV", "nextflowVersion": ">=20.07.1", - "version": "8.0.0" + "version": "8.1.0" }, "params": { "BCFtools_version": "1.17", @@ -94,7 +94,7 @@ }, "intersect_regions": "/hot/ref/tool-specific-input/pipeline-call-sSNV-6.0.0/GRCh38-BI-20160721/Homo_sapiens_assembly38_no-decoy.bed.gz", "intersect_regions_index": "/hot/ref/tool-specific-input/pipeline-call-sSNV-6.0.0/GRCh38-BI-20160721/Homo_sapiens_assembly38_no-decoy.bed.gz.tbi", - "log_output_dir": "/tmp/outputs/call-sSNV-8.0.0/0192847/log-call-sSNV-8.0.0-19970704T165655Z", + "log_output_dir": "/tmp/outputs/call-sSNV-8.1.0/0192847/log-call-sSNV-8.1.0-19970704T165655Z", "manta_version": "1.6.0", "max_cpus": "16", "max_memory": "31 GB", @@ -104,7 +104,7 @@ "ncbi_build": "GRCh38", "normal_id": "0192847", "output_dir": "/tmp/outputs", - "output_dir_base": "/tmp/outputs/call-sSNV-8.0.0/0192847", + "output_dir_base": "/tmp/outputs/call-sSNV-8.1.0/0192847", "patient_id": "TWGSAMIN000001", "pipeval_version": "4.0.0-rc.2", "proc_resource_params": { @@ -434,16 +434,16 @@ }, "report": { "enabled": true, - "file": "/tmp/outputs/call-sSNV-8.0.0/0192847/log-call-sSNV-8.0.0-19970704T165655Z/nextflow-log/report.html" + "file": "/tmp/outputs/call-sSNV-8.1.0/0192847/log-call-sSNV-8.1.0-19970704T165655Z/nextflow-log/report.html" }, "sm_tag": "0192847", "timeline": { "enabled": true, - "file": "/tmp/outputs/call-sSNV-8.0.0/0192847/log-call-sSNV-8.0.0-19970704T165655Z/nextflow-log/timeline.html" + "file": "/tmp/outputs/call-sSNV-8.1.0/0192847/log-call-sSNV-8.1.0-19970704T165655Z/nextflow-log/timeline.html" }, "trace": { "enabled": true, - "file": "/tmp/outputs/call-sSNV-8.0.0/0192847/log-call-sSNV-8.0.0-19970704T165655Z/nextflow-log/trace.txt" + "file": "/tmp/outputs/call-sSNV-8.1.0/0192847/log-call-sSNV-8.1.0-19970704T165655Z/nextflow-log/trace.txt" }, "valid_algorithms": [ "somaticsniper", diff --git a/test/configtest-F32.json b/test/configtest-F32.json index a4f92a2f..776757c1 100644 --- a/test/configtest-F32.json +++ b/test/configtest-F32.json @@ -43,7 +43,7 @@ "mainScript": "main.nf", "name": "call-sSNV", "nextflowVersion": ">=20.07.1", - "version": "8.0.0" + "version": "8.1.0" }, "params": { "BCFtools_version": "1.17", @@ -94,7 +94,7 @@ }, "intersect_regions": "/hot/ref/tool-specific-input/pipeline-call-sSNV-6.0.0/GRCh38-BI-20160721/Homo_sapiens_assembly38_no-decoy.bed.gz", "intersect_regions_index": "/hot/ref/tool-specific-input/pipeline-call-sSNV-6.0.0/GRCh38-BI-20160721/Homo_sapiens_assembly38_no-decoy.bed.gz.tbi", - "log_output_dir": "/tmp/outputs/call-sSNV-8.0.0/0192847/log-call-sSNV-8.0.0-19970704T165655Z", + "log_output_dir": "/tmp/outputs/call-sSNV-8.1.0/0192847/log-call-sSNV-8.1.0-19970704T165655Z", "manta_version": "1.6.0", "max_cpus": "32", "max_memory": "64 GB", @@ -104,7 +104,7 @@ "ncbi_build": "GRCh38", "normal_id": "0192847", "output_dir": "/tmp/outputs", - "output_dir_base": "/tmp/outputs/call-sSNV-8.0.0/0192847", + "output_dir_base": "/tmp/outputs/call-sSNV-8.1.0/0192847", "patient_id": "TWGSAMIN000001", "pipeval_version": "4.0.0-rc.2", "proc_resource_params": { @@ -434,16 +434,16 @@ }, "report": { "enabled": true, - "file": "/tmp/outputs/call-sSNV-8.0.0/0192847/log-call-sSNV-8.0.0-19970704T165655Z/nextflow-log/report.html" + "file": "/tmp/outputs/call-sSNV-8.1.0/0192847/log-call-sSNV-8.1.0-19970704T165655Z/nextflow-log/report.html" }, "sm_tag": "0192847", "timeline": { "enabled": true, - "file": "/tmp/outputs/call-sSNV-8.0.0/0192847/log-call-sSNV-8.0.0-19970704T165655Z/nextflow-log/timeline.html" + "file": "/tmp/outputs/call-sSNV-8.1.0/0192847/log-call-sSNV-8.1.0-19970704T165655Z/nextflow-log/timeline.html" }, "trace": { "enabled": true, - "file": "/tmp/outputs/call-sSNV-8.0.0/0192847/log-call-sSNV-8.0.0-19970704T165655Z/nextflow-log/trace.txt" + "file": "/tmp/outputs/call-sSNV-8.1.0/0192847/log-call-sSNV-8.1.0-19970704T165655Z/nextflow-log/trace.txt" }, "valid_algorithms": [ "somaticsniper",