[automated] Update json files

Author: nf-core-bot

public/pipelines.json

@@ -9189,7 +9189,7 @@
             "forks_count": 8,
             "archived": false,
             "disabled": false,
-            "open_issues_count": 13,
+            "open_issues_count": 14,
             "allow_forking": true,
             "is_template": false,
             "web_commit_signoff_required": false,
@@ -9198,7 +9198,7 @@
             "topics": [],
             "visibility": "public",
             "forks": 8,
-            "open_issues": 13,
+            "open_issues": 14,
             "watchers": 10,
             "default_branch": "dev",
             "temp_clone_token": "",
@@ -9269,7 +9269,7 @@
             "dev_branch_protection_enforce_admins": false,
             "TEMPLATE_branch_exists": true,
             "has_required_topics": true,
-            "open_pr_count": 1,
+            "open_pr_count": 2,
             "repository_url": "https://github.com/nf-core/datasync",
             "contributors": [
                 {
@@ -23371,12 +23371,12 @@
             "fork": false,
             "url": "https://api.github.com/repos/nf-core/longraredisease",
             "created_at": "2025-05-06T09:43:19Z",
-            "updated_at": "2026-06-26T15:02:27Z",
+            "updated_at": "2026-06-28T16:17:23Z",
             "pushed_at": "2026-06-27T08:23:26Z",
             "homepage": "https://nf-co.re/longraredisease/",
             "size": 441925,
-            "stargazers_count": 10,
-            "watchers_count": 10,
+            "stargazers_count": 11,
+            "watchers_count": 11,
             "language": "Nextflow",
             "has_issues": true,
             "has_projects": false,
@@ -23393,18 +23393,21 @@
             "web_commit_signoff_required": false,
             "has_pull_requests": true,
             "pull_request_creation_policy": "all",
-            "topics": [],
+            "topics": [
+                "nanopore",
+                "pacbio"
+            ],
             "visibility": "public",
             "forks": 5,
             "open_issues": 10,
-            "watchers": 10,
+            "watchers": 11,
             "default_branch": "master",
             "temp_clone_token": "",
             "allow_squash_merge": true,
             "allow_merge_commit": true,
             "allow_rebase_merge": true,
             "allow_auto_merge": false,
-            "delete_branch_on_merge": false,
+            "delete_branch_on_merge": true,
             "allow_update_branch": false,
             "use_squash_pr_title_as_default": false,
             "squash_merge_commit_message": "COMMIT_MESSAGES",
@@ -34324,9 +34327,9 @@
             "url": "https://api.github.com/repos/nf-core/pacsomatic",
             "created_at": "2025-09-18T19:44:04Z",
             "updated_at": "2026-02-20T09:29:03Z",
-            "pushed_at": "2026-01-26T21:43:30Z",
+            "pushed_at": "2026-06-28T23:10:38Z",
             "homepage": null,
-            "size": 2018,
+            "size": 2029,
             "stargazers_count": 2,
             "watchers_count": 2,
             "language": "Nextflow",
@@ -34911,9 +34914,9 @@
             "url": "https://api.github.com/repos/nf-core/pairgenomealign",
             "created_at": "2024-05-24T01:40:57Z",
             "updated_at": "2026-06-26T13:27:45Z",
-            "pushed_at": "2026-06-28T09:54:19Z",
+            "pushed_at": "2026-06-28T23:34:11Z",
             "homepage": "https://nf-co.re/pairgenomealign",
-            "size": 4852,
+            "size": 4578,
             "stargazers_count": 12,
             "watchers_count": 12,
             "language": "Nextflow",
@@ -34926,7 +34929,7 @@
             "forks_count": 4,
             "archived": false,
             "disabled": false,
-            "open_issues_count": 10,
+            "open_issues_count": 12,
             "allow_forking": true,
             "is_template": false,
             "web_commit_signoff_required": false,
@@ -34943,7 +34946,7 @@
             ],
             "visibility": "public",
             "forks": 4,
-            "open_issues": 10,
+            "open_issues": 12,
             "watchers": 12,
             "default_branch": "master",
             "temp_clone_token": "",
@@ -35014,7 +35017,7 @@
             "dev_branch_protection_enforce_admins": false,
             "TEMPLATE_branch_exists": true,
             "has_required_topics": true,
-            "open_pr_count": 1,
+            "open_pr_count": 2,
             "repository_url": "https://github.com/nf-core/pairgenomealign",
             "contributors": [
                 {
@@ -40829,9 +40832,9 @@
             "url": "https://api.github.com/repos/nf-core/raredisease",
             "created_at": "2021-06-21T09:40:29Z",
             "updated_at": "2026-06-25T07:00:32Z",
-            "pushed_at": "2026-06-27T09:50:22Z",
+            "pushed_at": "2026-06-28T16:38:08Z",
             "homepage": "https://nf-co.re/raredisease",
-            "size": 199487,
+            "size": 199501,
             "stargazers_count": 119,
             "watchers_count": 119,
             "language": "Nextflow",
@@ -46153,7 +46156,7 @@
             "has_wiki": false,
             "has_pages": false,
             "has_discussions": false,
-            "forks_count": 880,
+            "forks_count": 881,
             "archived": false,
             "disabled": false,
             "open_issues_count": 26,
@@ -46167,7 +46170,7 @@
                 "rna-seq"
             ],
             "visibility": "public",
-            "forks": 880,
+            "forks": 881,
             "open_issues": 26,
             "watchers": 1322,
             "default_branch": "master",
@@ -46212,7 +46215,7 @@
                     "status": "disabled"
                 }
             },
-            "network_count": 880,
+            "network_count": 881,
             "subscribers_count": 159,
             "team_contributors_permission_push": true,
             "team_contributors_permission_admin": false,
@@ -56289,7 +56292,7 @@
             "has_wiki": false,
             "has_pages": false,
             "has_discussions": false,
-            "forks_count": 222,
+            "forks_count": 223,
             "archived": false,
             "disabled": false,
             "open_issues_count": 73,
@@ -56310,7 +56313,7 @@
                 "star-solo"
             ],
             "visibility": "public",
-            "forks": 222,
+            "forks": 223,
             "open_issues": 73,
             "watchers": 336,
             "default_branch": "master",
@@ -56353,7 +56356,7 @@
                     "status": "disabled"
                 }
             },
-            "network_count": 222,
+            "network_count": 223,
             "subscribers_count": 136,
             "team_contributors_permission_push": true,
             "team_contributors_permission_admin": false,