From e9c38a2e5646baf81bf2cebfe6fff40492725888 Mon Sep 17 00:00:00 2001
From: Jordi Deu-Pons <jordi@jordeu.net>
Date: Tue, 22 Jun 2021 10:01:14 +0200
Subject: [PATCH 1/2] Remove default null parameters at schema

---
 nextflow_schema.json | 7 +------
 1 file changed, 1 insertion(+), 6 deletions(-)

diff --git a/nextflow_schema.json b/nextflow_schema.json
index 6c9c851..625e554 100644
--- a/nextflow_schema.json
+++ b/nextflow_schema.json
@@ -245,7 +245,6 @@
                 },
                 "merge_facet_vars": {
                     "type": "string",
-                    "default": "NULL"
                 },
                 "merge_outlier_vars": {
                     "type": "string",
@@ -331,7 +330,6 @@
                 },
                 "integ_ref_dataset": {
                     "type": "string",
-                    "default": "NULL"
                 },
                 "integ_min_cells": {
                     "type": "integer",
@@ -351,7 +349,6 @@
                 },
                 "integ_dims_use": {
                     "type": "string",
-                    "default": "NULL"
                 },
                 "integ_dist_use": {
                     "type": "string",
@@ -614,7 +611,6 @@
                 },
                 "dge_random_effects_var": {
                     "type": "string",
-                    "default": "NULL"
                 },
                 "dge_fc_threshold": {
                     "type": "number",
@@ -638,7 +634,6 @@
             "properties": {
                 "ipa_reference_file": {
                     "type": "string",
-                    "default": "NULL"
                 },
                 "ipa_enrichment_tool": {
                     "type": "string",
@@ -888,4 +883,4 @@
             "$ref": "#/definitions/max_job_request_options"
         }
     ]
-}
\ No newline at end of file
+}

From e1c0d5096e2e2df8ef25e6c92cd0b4c729ddb6ff Mon Sep 17 00:00:00 2001
From: Jordi Deu-Pons <jordi@jordeu.net>
Date: Mon, 28 Jun 2021 08:56:39 +0200
Subject: [PATCH 2/2] Fix nextflow schema linting

---
 nextflow_schema.json | 10 +++++-----
 1 file changed, 5 insertions(+), 5 deletions(-)

diff --git a/nextflow_schema.json b/nextflow_schema.json
index 625e554..01e9189 100644
--- a/nextflow_schema.json
+++ b/nextflow_schema.json
@@ -244,7 +244,7 @@
                     "default": "total_features_by_counts,total_counts,pc_mito,pc_ribo"
                 },
                 "merge_facet_vars": {
-                    "type": "string",
+                    "type": "string"
                 },
                 "merge_outlier_vars": {
                     "type": "string",
@@ -329,7 +329,7 @@
                     "default": 0.2
                 },
                 "integ_ref_dataset": {
-                    "type": "string",
+                    "type": "string"
                 },
                 "integ_min_cells": {
                     "type": "integer",
@@ -348,7 +348,7 @@
                     "default": 1
                 },
                 "integ_dims_use": {
-                    "type": "string",
+                    "type": "string"
                 },
                 "integ_dist_use": {
                     "type": "string",
@@ -610,7 +610,7 @@
                     "default": "cngeneson,seqdate,pc_mito"
                 },
                 "dge_random_effects_var": {
-                    "type": "string",
+                    "type": "string"
                 },
                 "dge_fc_threshold": {
                     "type": "number",
@@ -633,7 +633,7 @@
             "default": "",
             "properties": {
                 "ipa_reference_file": {
-                    "type": "string",
+                    "type": "string"
                 },
                 "ipa_enrichment_tool": {
                     "type": "string",