make linting happy

nf-cmgg · Oct 11, 2024 · 411a6bb · 411a6bb
1 parent 24d4518
commit 411a6bb
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Showing 3 changed files with 5 additions and 3 deletions.
diff --git a/.nf-core.yml b/.nf-core.yml
@@ -25,6 +25,8 @@ lint:
     - custom_config
     - manifest.name
     - manifest.homePage
+    - validation.help.afterText
+    - validation.summary.afterText
 nf_core_version: 3.0.1
 repository_type: pipeline
 template:

diff --git a/conf/base.config b/conf/base.config
@@ -10,7 +10,6 @@
 
 process {
 
-    // TODO nf-core: Check the defaults for all processes
     cpus   = { 1      * task.attempt }
     memory = { 8.GB   * task.attempt }
     time   = { 4.h    * task.attempt }

diff --git a/nextflow.config b/nextflow.config
@@ -235,8 +235,6 @@ profiles {
 includeConfig !System.getenv('NXF_OFFLINE') && params.custom_config_base ? "${params.custom_config_base}/nfcore_custom.config" : "/dev/null"
 
 // Load nf-cmgg/germline custom profiles from different institutions.
-// TODO nf-core: Optionally, you can add a pipeline-specific nf-core config at https://github.com/nf-core/configs
-// includeConfig !System.getenv('NXF_OFFLINE') && params.custom_config_base ? "${params.custom_config_base}/pipeline/germline.config" : "/dev/null"
 
 // Set default registry for Apptainer, Docker, Podman, Charliecloud and Singularity independent of -profile
 // Will not be used unless Apptainer / Docker / Podman / Charliecloud / Singularity are enabled
@@ -323,6 +321,9 @@ validation {
 -\033[2m----------------------------------------------------\033[0m-
 """
     }
+    summary {
+        beforeText = validation.help.beforeText
+    }
 }
 
 // Load modules.config for DSL2 module specific options