[automated] Update json files

Author: nf-core-bot

public/components.json

@@ -48632,7 +48632,7 @@
         },
         {
           "name": "pixelator",
-          "version": "4.1.2"
+          "version": "5.0.0"
         },
         {
           "name": "raredisease",
@@ -214341,6 +214341,143 @@
         ]
       }
     },
+    {
+      "name": "msisensorpro_baseline",
+      "path": "modules/nf-core/msisensorpro/baseline/meta.yml",
+      "type": "module",
+      "meta": {
+        "name": "msisensorpro_baseline",
+        "description": "MSIsensor-pro/baseline builds a baseline microsatellite file from a panel of normal samples, for use with msisensor-pro/pro tumor-only MSI detection.",
+        "keywords": [
+          "msisensor-pro",
+          "baseline",
+          "micro-satellite",
+          "tumor-only",
+          "panel-of-normals"
+        ],
+        "tools": [
+          {
+            "msisensorpro": {
+              "description": "Microsatellite Instability (MSI) detection using high-throughput sequencing data.",
+              "homepage": "https://github.com/xjtu-omics/msisensor-pro",
+              "documentation": "https://github.com/xjtu-omics/msisensor-pro/wiki",
+              "tool_dev_url": "https://github.com/xjtu-omics/msisensor-pro",
+              "doi": "10.1016/j.gpb.2020.02.001",
+              "licence": [
+                "Custom Licence"
+              ],
+              "identifier": ""
+            }
+          }
+        ],
+        "input": [
+          [
+            {
+              "meta": {
+                "type": "map",
+                "description": "Groovy Map containing baseline information\ne.g. `[ id:'my_baseline' ]`\n"
+              }
+            },
+            {
+              "list": {
+                "type": "file",
+                "description": "Microsatellite list produced by `msisensorpro/scan` and passed to\n`msisensor-pro baseline -d`.\n",
+                "pattern": "*.{list}",
+                "ontologies": []
+              }
+            }
+          ],
+          [
+            {
+              "meta2": {
+                "type": "map",
+                "description": "Groovy Map containing sample information for the panel of normals\n"
+              }
+            },
+            {
+              "pro_all_files": {
+                "type": "file",
+                "description": "One or more `*_all` files produced by running `msisensorpro/pro` on\nindividual normal samples. The configure file consumed by\n`msisensor-pro baseline -i` is constructed internally; sample names\nare derived from each file's basename with the `_all` suffix stripped.\n",
+                "pattern": "*_all",
+                "ontologies": []
+              }
+            }
+          ]
+        ],
+        "output": {
+          "baseline": [
+            [
+              {
+                "meta": {
+                  "type": "map",
+                  "description": "Groovy Map containing baseline information\ne.g. `[ id:'my_baseline' ]`\n"
+                }
+              },
+              {
+                "${prefix}.baseline": {
+                  "type": "file",
+                  "description": "Trained baseline microsatellite file suitable for passing to\n`msisensorpro/pro -d` for tumor-only MSI calling.\n",
+                  "pattern": "*.baseline",
+                  "ontologies": []
+                }
+              }
+            ]
+          ],
+          "versions_msisensorpro": [
+            [
+              {
+                "${task.process}": {
+                  "type": "string",
+                  "description": "The name of the process"
+                }
+              },
+              {
+                "msisensor-pro": {
+                  "type": "string",
+                  "description": "The name of the tool"
+                }
+              },
+              {
+                "msisensor-pro --version 2>&1 | sed -nE 's/Version:\\s*v//p'": {
+                  "type": "eval",
+                  "description": "The expression to obtain the version of the tool"
+                }
+              }
+            ]
+          ]
+        },
+        "topics": {
+          "versions": [
+            [
+              {
+                "${task.process}": {
+                  "type": "string",
+                  "description": "The name of the process"
+                }
+              },
+              {
+                "msisensor-pro": {
+                  "type": "string",
+                  "description": "The name of the tool"
+                }
+              },
+              {
+                "msisensor-pro --version 2>&1 | sed -nE 's/Version:\\s*v//p'": {
+                  "type": "eval",
+                  "description": "The expression to obtain the version of the tool"
+                }
+              }
+            ]
+          ]
+        },
+        "authors": [
+          "@nh13"
+        ],
+        "maintainers": [
+          "@nh13"
+        ]
+      }
+    },
     {
       "name": "msisensorpro_msisomatic",
       "path": "modules/nf-core/msisensorpro/msisomatic/meta.yml",
@@ -214635,8 +214772,8 @@
             {
               "list": {
                 "type": "file",
-                "description": "micro-satellite list",
-                "pattern": "*.{list}",
+                "description": "Micro-satellite file passed to `msisensor-pro pro -d`. The tool\naccepts either of two file types here:\n  1. A raw scan list produced by `msisensorpro/scan`. When used,\n     `msisensor-pro pro` falls back to a hard threshold for MSI\n     calling, set via `-i` (default `0.1`, configurable via\n     `ext.args`).\n  2. A trained baseline produced by `msisensorpro/baseline` from\n     a panel of normals. This enables per-site trained thresholds\n     and is the tumor-only workflow recommended by the\n     msisensor-pro maintainers\n     (https://github.com/xjtu-omics/msisensor-pro/wiki/Best-Practices).\n",
+                "pattern": "*.{list,baseline}",
                 "ontologies": []
               }
             }
@@ -383542,7 +383679,7 @@
         },
         {
           "name": "pixelator",
-          "version": "4.1.2"
+          "version": "5.0.0"
         },
         {
           "name": "proteinannotator",
@@ -383999,7 +384136,7 @@
         },
         {
           "name": "pixelator",
-          "version": "4.1.2"
+          "version": "5.0.0"
         },
         {
           "name": "proteinannotator",
@@ -384494,7 +384631,7 @@
         },
         {
           "name": "pixelator",
-          "version": "4.1.2"
+          "version": "5.0.0"
         },
         {
           "name": "proteinannotator",