From 4d42da400106756644e9ba5345271185214fa77c Mon Sep 17 00:00:00 2001 From: "Kelly Sovacool, PhD" Date: Thu, 21 Nov 2024 12:04:37 -0500 Subject: [PATCH] chore: delete miniconda container (#168) * chore: delete miniconda container no longer used * chore: update CHANGELOG.md --- CHANGELOG.md | 1 + config/containers/images.json | 1 - workflow/rules/common.smk | 5 ----- 3 files changed, 1 insertion(+), 6 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 699bfe6..db28cfb 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -1,6 +1,7 @@ ## RENEE development version - Consolidate `build_cluster.json` into `cluster.json`. (#167, @kelly-sovacool) +- Remove unused miniconda container. (#168, @kelly-sovacool) ## RENEE 2.6.1 diff --git a/config/containers/images.json b/config/containers/images.json index f33477b..f6ff436 100644 --- a/config/containers/images.json +++ b/config/containers/images.json @@ -9,7 +9,6 @@ "fastqc": "docker://nciccbr/ccbr_fastqc_0.11.9:v1.1", "fastqvalidator": "docker://nciccbr/ccbr_fastqvalidator:v0.1.0", "kraken": "docker://nciccbr/ccbr_kraken_v2.1.1:v0.0.1", - "miniconda": "docker://continuumio/miniconda3:4.9.2", "multiqc": "docker://skchronicles/multiqc:v0.1.0", "picard": "docker://nciccbr/ccbr_picard:v0.0.1", "preseq": "docker://nciccbr/ccbr_preseq:v0.0.1", diff --git a/workflow/rules/common.smk b/workflow/rules/common.smk index a159441..39ec581 100644 --- a/workflow/rules/common.smk +++ b/workflow/rules/common.smk @@ -4,11 +4,6 @@ from scripts.common import ( allocated ) -# This container defines the underlying OS for each job when using the workflow -# with --use-conda --use-singularity -container: config['images']['miniconda'] - - # Rules common to RNA-seq pipeline, irrespective if the data is single-end or paired-end rule fc_lane: """