Remove --enable_conda

Author: drpatelh

CHANGELOG.md

@@ -7,8 +7,19 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ### Enhancements & fixes
 
+- Bump minimum Nextflow version from `21.10.3` -> `22.10.1`
 - Updated pipeline template to [nf-core/tools 2.7.1](https://github.com/nf-core/tools/releases/tag/2.7.1)
 
+### Parameters
+
+| Old parameter               | New parameter                  |
+| --------------------------- | ------------------------------ |
+| `--enable_conda`            |                                |
+
+> **NB:** Parameter has been **updated** if both old and new parameter information is present.
+> **NB:** Parameter has been **added** if just the new parameter information is present.
+> **NB:** Parameter has been **removed** if new parameter information isn't present.
+
 ## [[3.9](https://github.com/nf-core/rnaseq/releases/tag/3.9)] - 2022-09-30
 
 ### Enhancements & fixes

nextflow.config

@@ -110,7 +110,6 @@ params {
     validate_params            = true
     show_hidden_params         = false
     schema_ignore_params       = 'genomes'
-    enable_conda               = false
 
     // Config options
     custom_config_version      = 'master'
@@ -147,7 +146,6 @@ try {
 profiles {
     debug { process.beforeScript = 'echo $HOSTNAME' }
     conda {
-        params.enable_conda    = true
         conda.enabled          = true
         docker.enabled         = false
         singularity.enabled    = false
@@ -156,7 +154,6 @@ profiles {
         charliecloud.enabled   = false
     }
     mamba {
-        params.enable_conda    = true
         conda.enabled          = true
         conda.useMamba         = true
         docker.enabled         = false

nextflow_schema.json

@@ -706,12 +706,6 @@
                     "description": "Show all params when using `--help`",
                     "hidden": true,
                     "help_text": "By default, parameters set as _hidden_ in the schema are not shown on the command line when a user runs with `--help`. Specifying this option will tell the pipeline to show all parameters."
-                },
-                "enable_conda": {
-                    "type": "boolean",
-                    "description": "Run this workflow with Conda. You can also use '-profile conda' instead of providing this parameter.",
-                    "hidden": true,
-                    "fa_icon": "fas fa-bacon"
                 }
             }
         }