chore: delete miniconda container

no longer used
CCBR · Nov 21, 2024 · b0aa2f6 · b0aa2f6
1 parent 7cc0322
commit b0aa2f6
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diff --git 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
@@ -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:
     """