From b6092b82a720ccc48c158fdff43d9ee911a45564 Mon Sep 17 00:00:00 2001 From: maxulysse Date: Thu, 31 Aug 2023 17:41:03 +0200 Subject: [PATCH 1/2] remove params.singularity_pull_docker_container from test profiles --- conf/test.config | 1 - conf/test/cache.config | 1 - 2 files changed, 2 deletions(-) diff --git a/conf/test.config b/conf/test.config index c3e1221dc6..2403fc63e9 100644 --- a/conf/test.config +++ b/conf/test.config @@ -103,7 +103,6 @@ if (System.getenv('PROFILE')) { singularity.enabled = false } else if ("$PROFILE" == "singularity") { conda.enabled = false - params.singularity_pull_docker_container = false singularity.autoMounts = true singularity.enabled = true charliecloud.enabled = false diff --git a/conf/test/cache.config b/conf/test/cache.config index ad57191288..732d827dfe 100644 --- a/conf/test/cache.config +++ b/conf/test/cache.config @@ -119,7 +119,6 @@ if (System.getenv('PROFILE')) { singularity.enabled = false } else if ("$PROFILE" == "singularity") { conda.enabled = false - params.singularity_pull_docker_container = false singularity.autoMounts = true singularity.enabled = true charliecloud.enabled = false From 73bb2b0e74e4ca432a6d0db160db7e79f739d40e Mon Sep 17 00:00:00 2001 From: maxulysse Date: Thu, 31 Aug 2023 17:42:51 +0200 Subject: [PATCH 2/2] update CHANGELOG --- CHANGELOG.md | 5 +++-- 1 file changed, 3 insertions(+), 2 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 347fd30801..d084451742 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -51,8 +51,9 @@ Rapaselet is a delta formed by the Rapaätno river between the Bielloriehppe mas - [#1183](https://github.com/nf-core/sarek/pull/1183) - Add docs for concatentated germline variants - [#1184](https://github.com/nf-core/sarek/pull/1184) - Fix issue with duplicated variants in VCF from Sentieon-based joint-germline variant-calling with VQSR. (Corresponding to [#966](https://github.com/nf-core/sarek/issues/966) for GATK.) - [#1192](https://github.com/nf-core/sarek/pull/1192) - Add `ASCATprofile.png` to ASCAT output docs -- [#1197](https://github.com/nf-core/sarek/pull/1197) - Improve `tower.yml` file to display reports in `Tower` ([#1190](https://github.com/nf-core/sarek/issues/1190)) -- [#1202](https://github.com/nf-core/sarek/pull/1202) - Remove GitHub action step that caches Nextflow. Also bump other out of date actions. +- [#1197](https://github.com/nf-core/sarek/pull/1197) - Improve `tower.yml` file to display reports in Tower ([#1190](https://github.com/nf-core/sarek/issues/1190)) +- [#1202](https://github.com/nf-core/sarek/pull/1202) - Remove GitHub action step that caches Nextflow and bump other out of date actions +- [#1203](https://github.com/nf-core/sarek/pull/1203) - Fix issue with Singularity containers on test profiles ### Dependencies