match template

Author: nebfield

.gitattributes

@@ -1 +1,3 @@
 *.config linguist-language=nextflow
+modules/nf-core/** linguist-generated
+subworkflows/nf-core/** linguist-generated

lib/NfcoreSchema.groovy

@@ -206,7 +206,7 @@ class NfcoreSchema {
                 }
                 def type = '[' + group_params.get(param).type + ']'
                 def description = group_params.get(param).description
-                def defaultValue = group_params.get(param).default ? " [default: " + group_params.get(param).default.toString() + "]" : ''
+                def defaultValue = group_params.get(param).default != null ? " [default: " + group_params.get(param).default.toString() + "]" : ''
                 def description_default = description + colors.dim + defaultValue + colors.reset
                 // Wrap long description texts
                 // Loosely based on https://dzone.com/articles/groovy-plain-text-word-wrap
@@ -362,7 +362,7 @@ class NfcoreSchema {
             }
         }
         for (ex in causingExceptions) {
-            printExceptions(ex, params_json, log)
+            printExceptions(ex, params_json, log, enums)
         }
     }
 

lib/NfcoreTemplate.groovy

@@ -24,7 +24,7 @@ class NfcoreTemplate {
     public static void checkConfigProvided(workflow, log) {
         if (workflow.profile == 'standard' && workflow.configFiles.size() <= 1) {
             log.warn "[$workflow.manifest.name] You are attempting to run the pipeline without any custom configuration!\n\n" +
-                    "This will be dependent on your local compute enviroment but can be acheived via one or more of the following:\n" +
+                    "This will be dependent on your local compute environment but can be achieved via one or more of the following:\n" +
                     "   (1) Using an existing pipeline profile e.g. `-profile docker` or `-profile singularity`\n" +
                     "   (2) Using an existing nf-core/configs for your Institution e.g. `-profile crick` or `-profile uppmax`\n" +
                     "   (3) Using your own local custom config e.g. `-c /path/to/your/custom.config`\n\n" +