schema help text, formatting

nf-core · Feb 9, 2024 · 7ffb437 · 7ffb437
1 parent ab69e97
commit 7ffb437
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Showing 2 changed files with 7 additions and 4 deletions.
diff --git a/nextflow.config b/nextflow.config
@@ -29,7 +29,7 @@ params {
     mirgenedb_gff               = null
     mirgenedb_species           = null
     save_aligned                = false
-    save_aligned_mirna_quant     = true
+    save_aligned_mirna_quant    = true
 
     // UMI handling
     with_umi                      = false

diff --git a/nextflow_schema.json b/nextflow_schema.json
@@ -187,13 +187,16 @@
                 },
                 "save_aligned": {
                     "type": "boolean",
-                    "fa_icon": "fas fa-download",
-                    "description": "Save aligned reads in bam format."
+                    "fa_icon": "fas fa-save",
+                    "help_text": "Save aligned reads of initial bowtie mapping.",
+                    "description": "Save aligned reads of initial mapping in bam format."
                 },
                 "save_aligned_mirna_quant": {
                     "type": "boolean",
+                    "fa_icon": "fas fa-save",
                     "default": true,
-                    "description": "Save aligned reads in bam format of miRNA quant subworkflow."
+                    "help_text": "Save aligned reads of the bowtie runs in BOWTIE_MAP_MATURE, BOWTIE_MAP_HAIRPIN, and BOWTIE_MAP_SEQCLUSTER.",
+                    "description": "Save aligned reads of miRNA quant subworkflow in bam format."
                 },
                 "igenomes_ignore": {
                     "type": "boolean",