From 846693fa78a923c12e397e89c447816c70de097b Mon Sep 17 00:00:00 2001 From: "Hyunmin Kim (Brandon)" Date: Tue, 24 Oct 2023 23:49:36 +0900 Subject: [PATCH] fix: update gffults & qc (#69) * update gffults & qc * fix indentationg of rule multiqc wrapper version spec line * fix: biomart race conditions should be fixed in newer versions via https://github.com/grimbough/biomaRt/commit/94a1f92bb10f18c442e6320d0c51f2a499817762 --------- Co-authored-by: Ubuntu Co-authored-by: David Laehnemann --- workflow/envs/biomart.yaml | 4 ++-- workflow/envs/gffutils.yaml | 2 +- workflow/rules/qc.smk | 2 +- 3 files changed, 4 insertions(+), 4 deletions(-) diff --git a/workflow/envs/biomart.yaml b/workflow/envs/biomart.yaml index 16a0027..04342c7 100644 --- a/workflow/envs/biomart.yaml +++ b/workflow/envs/biomart.yaml @@ -3,5 +3,5 @@ channels: - bioconda - nodefaults dependencies: - - bioconductor-biomart =2.54 - - r-tidyverse =1.3 + - bioconductor-biomart =2.56 + - r-tidyverse =2.0 diff --git a/workflow/envs/gffutils.yaml b/workflow/envs/gffutils.yaml index 2959827..931f26f 100644 --- a/workflow/envs/gffutils.yaml +++ b/workflow/envs/gffutils.yaml @@ -3,4 +3,4 @@ channels: - bioconda - nodefaults dependencies: - - gffutils =0.11 + - gffutils =0.12 diff --git a/workflow/rules/qc.smk b/workflow/rules/qc.smk index 02a60a5..da62289 100644 --- a/workflow/rules/qc.smk +++ b/workflow/rules/qc.smk @@ -193,4 +193,4 @@ rule multiqc: log: "logs/multiqc.log", wrapper: - "v1.21.4/bio/multiqc" + "v2.7.0/bio/multiqc"