[automated] Update json files and markdown cache

nf-core · Feb 18, 2025 · 1932090 · 1932090
1 parent b71d1e7
commit 1932090
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Showing 3 changed files with 139 additions and 80 deletions.
diff --git a/.cache.tar.xz b/.cache.tar.xz
diff --git a/public/components.json b/public/components.json
@@ -8964,6 +8964,10 @@
           "name": "rnafusion",
           "version": "3.0.2"
         },
+        {
+          "name": "rnafusion",
+          "version": "3.0.2"
+        },
         {
           "name": "rnafusion",
           "version": "3.0.2"
@@ -28338,6 +28342,14 @@
                 "description": "Path to BUSCO config file."
               }
             }
+          ],
+          [
+            {
+              "clean_intermediates": {
+                "type": "boolean",
+                "description": "Flag to remove intermediate files."
+              }
+            }
           ]
         ],
         "output": [
@@ -28392,6 +28404,23 @@
               }
             ]
           },
+          {
+            "log": [
+              {
+                "meta": {
+                  "type": "map",
+                  "description": "Groovy Map containing sample information\ne.g. [ id:'test' ]\n"
+                }
+              },
+              {
+                "*-busco/logs/busco.log": {
+                  "type": "file",
+                  "description": "BUSCO main log",
+                  "pattern": "*-busco/logs/busco.log"
+                }
+              }
+            ]
+          },
           {
             "full_table": [
               {
@@ -112961,6 +112990,22 @@
           "name": "pathogensurveillance",
           "version": "dev"
         },
+        {
+          "name": "phyloplace",
+          "version": "1.0.0"
+        },
+        {
+          "name": "ampliseq",
+          "version": "2.12.0"
+        },
+        {
+          "name": "multiplesequencealign",
+          "version": "1.0.0"
+        },
+        {
+          "name": "pathogensurveillance",
+          "version": "dev"
+        },
         {
           "name": "phyloplace",
           "version": "1.0.0"
@@ -138802,6 +138847,10 @@
           "name": "viralrecon",
           "version": "2.6.0"
         },
+        {
+          "name": "viralrecon",
+          "version": "2.6.0"
+        },
         {
           "name": "viralrecon",
           "version": "2.6.0"
@@ -210927,6 +210976,12 @@
               "type": "path",
               "description": "Path to BUSCO config. It is optional and can be set to `[]`\nStructure:val(busco_config)\n"
             }
+          },
+          {
+            "val_busco_cleanup": {
+              "type": "boolean",
+              "description": "Flag to indicate if intermediate BUSCO files should be removed\nStructure:val(busco_cleanup)\n"
+            }
           }
         ],
         "output": [
@@ -215362,6 +215417,10 @@
           "name": "phageannotator",
           "version": "dev"
         },
+        {
+          "name": "phageannotator",
+          "version": "dev"
+        },
         {
           "name": "phageannotator",
           "version": "dev"