Merge branch 'dev' into fix-arm64-profile

Author: pinin4fjords

CHANGELOG.md

@@ -28,6 +28,7 @@ Special thanks to the following for their contributions to the release:
 - [PR #1625](https://github.com/nf-core/rnaseq/pull/1625) - Add documentation warning about Qualimap read counting bug ([#1273](https://github.com/nf-core/rnaseq/issues/1273))
 - [PR #1628](https://github.com/nf-core/rnaseq/pull/1628) - Template update for nf-core/tools v3.5.1
 - [PR #1630](https://github.com/nf-core/rnaseq/pull/1630) - Fix arm64 profile to use pre-built ARM containers and update documentation
+- [PR #1631](https://github.com/nf-core/rnaseq/pull/1631) - Fix bbsplit index staging by using symlinks instead of full copy
 
 ## [[3.21.0](https://github.com/nf-core/rnaseq/releases/tag/3.21.0)] - 2025-09-18
 

modules.json

@@ -7,7 +7,7 @@
                 "nf-core": {
                     "bbmap/bbsplit": {
                         "branch": "master",
-                        "git_sha": "fa1477128e0ff24675c8f56d6c334fcc323025c4",
+                        "git_sha": "6da7216c83d9d885bdeb7aef1bcb9b51a90f370b",
                         "installed_by": ["fastq_qc_trim_filter_setstrandedness", "modules"]
                     },
                     "bedtools/genomecov": {