Merge pull request wtsi-npg#165 from wtsi-npg/devel

Pull from devel to master to create release 52.2.4

.github/dependabot.yml

@@ -0,0 +1,10 @@
+# Referenced from:
+# https://docs.github.com/en/code-security/dependabot/working-with-dependabot/keeping-your-actions-up-to-date-with-dependabot
+
+version: 2
+updates:
+
+  - package-ecosystem: "github-actions"
+    directory: "/"
+    schedule:
+      interval: "weekly"

.github/workflows/perlbrew.sha256

@@ -1 +1 @@
-c3996e4fae37a0ae01839cdd73752fb7b17e81bac2a8b39712463a7d518c4945  perlbrew.sh
+8f254651d2eee188199b3355228eb67166974716081b794ca93b69c8f949c38d  perlbrew.sh

.github/workflows/run-tests.yml

@@ -23,7 +23,7 @@ jobs:
         perl: ["5.26.3", "5.34.1"]
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
         with:
           fetch-depth: '0'
 
@@ -40,7 +40,7 @@ jobs:
 
       - name: "Cache Conda"
         id: minicondaCache
-        uses: actions/cache@v3
+        uses: actions/cache@v4
         with:
           path: |
             ~/conda/pkgs
@@ -62,7 +62,7 @@ jobs:
 
       - name: "Cache Perl"
         id: cache-perl
-        uses: actions/cache@v3
+        uses: actions/cache@v4
         with:
           path: ${{ env.PERL_CACHE }}
           key: ${{ runner.os }}-${{ matrix.perl }}-perl
@@ -107,7 +107,7 @@ jobs:
 
       - name: "Archive CPAN logs on failure"
         if: ${{ failure() }}
-        uses: actions/upload-artifact@v2
+        uses: actions/upload-artifact@v4
         with:
           name: cpan_log
           path: ~/.cpanm/work/*/build.log

Changes

@@ -1,5 +1,15 @@
 LIST OF CHANGES
 
+release 52.2.4 (2024-10-04)
+ - Added .github/dependabot.yml file to auto-update GitHub actions
+ - Following a release on 07/09/2024, see https://metacpan.org/dist/App-perlbrew/changes
+   the checksum of the script served by https://install.perlbrew.pl had changed.
+   https://install.perlbrew.pl is a redirect to raw
+   https://github.com/gugod/App-perlbrew/blob/master/perlbrew-install, so
+   the change originates from GitHub and can be trusted. Our CI flow compares
+   the checksum of the downloaded script to the expected value. We now store
+   an updated expected checksum value, which corresponds to the latest release.
+
 release 52.2.3 (2024-05-24)
   - Removing Tidyp dependency from CI
 
@@ -1082,4 +1092,3 @@ release 1.0
  - created heatmap module for illumina chips
  - created scale module for producing scale image with limits on it
  - tests for heatmap and scale
-