diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml index 28c0b02c3..0ea4cbbfa 100644 --- a/.github/workflows/main.yml +++ b/.github/workflows/main.yml @@ -45,7 +45,7 @@ jobs: - name: update apt run: sudo apt-get update - name: Free Disk Space (Ubuntu) - uses: jlumbroso/free-disk-space@v1.2.0 + uses: jlumbroso/free-disk-space@v1.3.0 with: # this might remove tools that are actually needed, # if set to "true" but frees about 6 GB @@ -57,7 +57,7 @@ jobs: dotnet: true haskell: true large-packages: true - docker-images: true + docker-images: false swap-storage: true - uses: actions/checkout@v2 diff --git a/CHANGELOG.md b/CHANGELOG.md index e86a39344..53c215f82 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -1,5 +1,12 @@ # Changelog +## [5.0.2](https://github.com/snakemake-workflows/dna-seq-varlociraptor/compare/v5.0.1...v5.0.2) (2023-10-09) + + +### Bug Fixes + +* remove superfluous import of FTP remote provider ([ae68b90](https://github.com/snakemake-workflows/dna-seq-varlociraptor/commit/ae68b9079b92ddf6b0ace6888c171381d297ceee)) + ## [5.0.1](https://github.com/snakemake-workflows/dna-seq-varlociraptor/compare/v5.0.0...v5.0.1) (2023-08-25) diff --git a/workflow/rules/candidate_calling.smk b/workflow/rules/candidate_calling.smk index f562e190c..4395316cb 100644 --- a/workflow/rules/candidate_calling.smk +++ b/workflow/rules/candidate_calling.smk @@ -19,8 +19,7 @@ rule freebayes: ), threads: max(workflow.cores - 1, 1) # use all available cores -1 (because of the pipe) for calling wrapper: - #update to new release once available - "v2.6.0-35-g755343f/bio/freebayes" + "v2.7.0/bio/freebayes" rule delly: diff --git a/workflow/rules/common.smk b/workflow/rules/common.smk index e2af333bc..45880756a 100644 --- a/workflow/rules/common.smk +++ b/workflow/rules/common.smk @@ -3,11 +3,8 @@ from os import path import yaml import pandas as pd -from snakemake.remote import FTP from snakemake.utils import validate -ftp = FTP.RemoteProvider() - validate(config, schema="../schemas/config.schema.yaml") samples = ( diff --git a/workflow/rules/qc.smk b/workflow/rules/qc.smk index 989d4b5f2..eb742c455 100644 --- a/workflow/rules/qc.smk +++ b/workflow/rules/qc.smk @@ -48,4 +48,4 @@ rule multiqc: log: "logs/multiqc/{group}.log", wrapper: - "v2.3.2/bio/multiqc" + "v2.7.0/bio/multiqc"