remove the jgit dep patch

Signed-off-by: Batuhan Apaydin <16693043+developer-guy@users.noreply.github.com>

Author: developer-guy

nextflow.yaml

@@ -33,10 +33,6 @@ pipeline:
 
   - uses: auth/gradle
 
-  - uses: patch
-    with:
-      patches: eclipse-GHSA-vrpq-qp53-qv56-fix.patch
-
   - runs: |
       # CVE-2025-48924 GHSA-j288-q9x7-2f5v
       sed -i -e 's|org.apache.commons:commons-lang3=3.12.0|org.apache.commons:commons-lang3=3.18.0|g' plugins/nf-wave/build.gradle