From d6b59bfd563126964d692de882427f5246713392 Mon Sep 17 00:00:00 2001
From: nservant <nicolas.servant@curie.fr>
Date: Mon, 19 Dec 2022 17:48:28 +0100
Subject: [PATCH] [MODIF] fix lint warning
---
modules/local/split_cooler_dump.nf | 3 +++
nextflow.config | 3 ++-
nextflow_schema.json | 6 ++++++
3 files changed, 11 insertions(+), 1 deletion(-)
diff --git a/modules/local/split_cooler_dump.nf b/modules/local/split_cooler_dump.nf
index b7272e8..fbe1428 100644
--- a/modules/local/split_cooler_dump.nf
+++ b/modules/local/split_cooler_dump.nf
@@ -14,6 +14,9 @@ process SPLIT_COOLER_DUMP {
tuple val(meta), path("*.txt"), emit: matrix
path ("versions.yml"), emit: versions
+ when:
+ task.ext.when == null || task.ext.when
+
script:
def args = task.ext.args ?: ''
prefix = bedpe.toString() - ~/(\_balanced)?.bedpe$/
diff --git a/nextflow.config b/nextflow.config
index aad6d92..32176ea 100644
--- a/nextflow.config
+++ b/nextflow.config
@@ -110,7 +110,8 @@ params {
version = false
validate_params = true
show_hidden_params = false
- schema_ignore_params = 'genomes'
+ schema_ignore_params = 'genomes,digest'
+ enable_conda = false
// Config options
diff --git a/nextflow_schema.json b/nextflow_schema.json
index 96e9e09..8bce173 100644
--- a/nextflow_schema.json
+++ b/nextflow_schema.json
@@ -520,6 +520,12 @@
"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"
}
}
}
--
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