From 52d6068329e300a089377d77bf181089bdd11426 Mon Sep 17 00:00:00 2001
From: Peter Kok <kretep@users.noreply.github.com>
Date: Thu, 10 Oct 2024 18:10:19 +0200
Subject: [PATCH] Add sage to domain

---
 cwl-tools/Sage-proteomics/tool.json |  3 +++
 domains/proteomics/tools.json       | 29 +++++++++++++++++++++++++++++
 2 files changed, 32 insertions(+)

diff --git a/cwl-tools/Sage-proteomics/tool.json b/cwl-tools/Sage-proteomics/tool.json
index 59f760b..a167926 100644
--- a/cwl-tools/Sage-proteomics/tool.json
+++ b/cwl-tools/Sage-proteomics/tool.json
@@ -22,6 +22,9 @@
       "http://edamontology.org/operation_3633",
       "http://edamontology.org/operation_2428"
     ],
+    "implementation": {
+      "cwl_reference": "https://raw.githubusercontent.com/Workflomics/tools-and-domains/refs/heads/main/cwl-tools/Sage-proteomics/Sage-proteomics.cwl"
+    },
     "label": "Sage",
     "id": "Sage-proteomics"
   }
diff --git a/domains/proteomics/tools.json b/domains/proteomics/tools.json
index 5c28955..a7a8fff 100644
--- a/domains/proteomics/tools.json
+++ b/domains/proteomics/tools.json
@@ -425,6 +425,35 @@
       "biotoolsID": "msfragger",
       "label": "MSFragger",
       "id": "MSFragger"
+    },
+    {
+      "outputs": [
+        {
+          "format_1915": ["http://edamontology.org/format_3247"],
+          "data_0006": ["http://edamontology.org/data_0945"]
+        }
+      ],
+      "biotoolsID": "Sage-proteomics",
+      "inputs": [
+        {
+          "format_1915": ["http://edamontology.org/format_3244"],
+          "data_0006": ["http://edamontology.org/data_0943"]
+        },
+        {
+          "format_1915": ["http://edamontology.org/format_1929"],
+          "data_0006": ["http://edamontology.org/data_2976"]
+        }
+      ],
+      "taxonomyOperations": [
+        "http://edamontology.org/operation_3631",
+        "http://edamontology.org/operation_3633",
+        "http://edamontology.org/operation_2428"
+      ],
+      "implementation": {
+        "cwl_reference": "https://raw.githubusercontent.com/Workflomics/tools-and-domains/refs/heads/main/cwl-tools/Sage-proteomics/Sage-proteomics.cwl"
+      },
+      "label": "Sage",
+      "id": "Sage-proteomics"
     }
   ]
 }