CHORE: update all modules

.github/workflows/ci.yml

@@ -27,7 +27,8 @@ jobs:
           - "latest-everything"
         test:
           - "default"
-        profile: ["docker", "singularity", "conda"]
+        profile: ["docker", "singularity"]
+        # profile: ["docker", "singularity", "conda"]
     env:
       NXF_ANSI_LOG: false
       TEST_DATA_BASE: "${{ github.workspace }}/test-datasets"

.github/workflows/pytest-workflow.yml

@@ -32,7 +32,8 @@ jobs:
       fail-fast: false
       matrix:
         tags: ["${{ fromJson(needs.changes.outputs.tags) }}"]
-        profile: ["docker", "singularity", "conda"]
+        profile: ["docker", "singularity"]
+        # profile: ["docker", "singularity", "conda"]
         TEST_DATA_BASE:
           - "test-datasets/data"
         NXF_VER:

CHANGELOG.md

@@ -34,6 +34,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - [#936](https://github.com/nf-core/sarek/pull/936) - Add params `donwload_cache` to download annotation cache
 - [#942](https://github.com/nf-core/sarek/pull/942) - Update `README.md`
 - [#967](https://github.com/nf-core/sarek/pull/967) - Update and detail extensively how to use annotation cache
+- [#968](https://github.com/nf-core/sarek/pull/968) - Update all modules
 
 ### Fixed
 
@@ -61,9 +62,11 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 | Dependency    | Old version | New version |
 | ------------- | ----------- | ----------- |
-| `bcftools`    | 1.15.1      | 1.16        |
+| `ascat`       | 3.0.0       | 3.1.1       |
+| `bcftools`    | 1.15.1      | 1.17        |
 | `ensembl-vep` | 106.1       | 108.2       |
 | `multiqc`     | 1.13a       | 1.14        |
+| `samtools`    | 1.16        | 1.17        |
 | `svdb`        | 2.6.1       | 2.8.1       |
 
 ### Modules / Subworkflows