Merge pull request #1143 from maxulysse/snpeff

snpeff_db a string not a number

.nf-core.yml

@@ -11,4 +11,5 @@ lint:
     - docs/images/nf-core-sarek_logo_light.png
     - lib/NfcoreTemplate.groovy
     - lib/NfcoreSchema.groovy
+  schema_params: False
   template_strings: False

CHANGELOG.md

@@ -16,6 +16,8 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ### Fixed
 
+- [#1143](https://github.com/nf-core/sarek/pull/1143) - `snpeff_db` is now a string
+
 ## [3.2.3](https://github.com/nf-core/sarek/releases/tag/3.2.3) - Gällivare
 
 Gällivare is a small lake next to Pierikjaure.
@@ -1214,7 +1216,7 @@ Ruotes is one of the main massif in the Sarek National Park.
 - [#607](https://github.com/SciLifeLab/Sarek/pull/607) - Update to `GATK4`
 - [#608](https://github.com/SciLifeLab/Sarek/pull/608) - Update `Nextflow` required version
 - [#616](https://github.com/SciLifeLab/Sarek/pull/616) - Update `CHANGELOG`
-- [#617](https://github.com/SciLifeLab/Sarek/pull/617) - Replace deprecated ` Nextflow ``$name ` syntax with `withName`
+- [#617](https://github.com/SciLifeLab/Sarek/pull/617) - Replace deprecated `Nextflow ``$name` syntax with `withName`
 
 ### Fixed
 

nextflow.config

@@ -126,11 +126,10 @@ params {
 
     // Schema validation default options
     validationFailUnrecognisedParams = false
-    validationLenientMode            = false
+    validationLenientMode            = true
     validationSchemaIgnoreParams     = 'genomes,snpeff_version,vep_version,cf_ploidy'
     validationShowHiddenParams       = false
     validate_params                  = true
-
 }
 
 // Load base.config by default for all pipelines

nextflow_schema.json

@@ -692,7 +692,7 @@
                     "help_text": "If you use AWS iGenomes, this has already been set for you appropriately."
                 },
                 "snpeff_db": {
-                    "type": "number",
+                    "type": "string",
                     "fa_icon": "fas fa-database",
                     "description": "snpEff DB version.",
                     "help_text": "If you use AWS iGenomes, this has already been set for you appropriately.\nThis is used to specify the database to be use to annotate with.\nAlternatively databases' names can be listed with the `snpEff databases`.",