diff --git a/.github/copilot-instructions.md b/.github/copilot-instructions.md
index ab79ac9..d54d055 100644
--- a/.github/copilot-instructions.md
+++ b/.github/copilot-instructions.md
@@ -148,17 +148,17 @@ Example:
 
 ```json
 {
-  "Insert CRAFT prompt": {
-    "prefix": "craft",
-    "body": [
-      "/* C: Context: Repo=${workspaceFolderBasename}; bioinformatics pipelines; NIH HPC (Biowulf/Helix); containers: quay.io/ccbr */",
-      "/* R: Rules: no PHI, no secrets, containerize, pin versions, follow style */",
-      "/* F: Flow: inputs/ -> results/, conf/, tests/ */",
-      "/* T: Tests: provide a one-line TEST_CMD and expected output */",
-      "",
-      "A: $1"
-    ],
-    "description": "Insert CRAFT prompt and place cursor at Actions"
-  }
+    "Insert CRAFT prompt": {
+        "prefix": "craft",
+        "body": [
+            "/* C: Context: Repo=${workspaceFolderBasename}; bioinformatics pipelines; NIH HPC (Biowulf/Helix); containers: quay.io/ccbr */",
+            "/* R: Rules: no PHI, no secrets, containerize, pin versions, follow style */",
+            "/* F: Flow: inputs/ -> results/, conf/, tests/ */",
+            "/* T: Tests: provide a one-line TEST_CMD and expected output */",
+            "",
+            "A: $1"
+        ],
+        "description": "Insert CRAFT prompt and place cursor at Actions"
+    }
 }
 ```
diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index 4e799cd..ad9fbb6 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -22,12 +22,12 @@ repos:
         # https://github.com/codespell-project/codespell/issues/1498
   # Python formatting
   - repo: https://github.com/psf/black-pre-commit-mirror
-    rev: 26.3.1
+    rev: 26.5.1
     hooks:
       - id: black
   # R formatting
   - repo: https://github.com/lorenzwalthert/precommit
-    rev: v0.4.3.9021
+    rev: v0.4.3.9026
     hooks:
       - id: style-files
   # general linting
diff --git a/SECURITY.md b/SECURITY.md
index 28421a0..99da43f 100644
--- a/SECURITY.md
+++ b/SECURITY.md
@@ -2,7 +2,7 @@
 
 ## Maintained Versions
 
-Actively maintained versions of contained software will vary from repository to repository, or may not be relevant at all.  
+Actively maintained versions of contained software will vary from repository to repository, or may not be relevant at all.
 The developers of this repository will update this section if any actively maintained versions of the software need to be publicly disclosed. Otherwise, contact the developers directly for any version information.
 
 ## Vulnerability Disclosure:
@@ -16,4 +16,3 @@ Follow the instructions listed in the [HHS vulnerability disclosure policy](http
 1. Click on the **Security and quality** tab of this repository.
 2. Locate the **Report a vulnerability** button. If the button is not on the **Security and quality** landing page, look under the **Advisories** section in the side bar.
 3. Click the **Report a vulnerability** button and submit the form. The developers will receive a notification of your submission.
-