Merge pull request #460 from galaxyproject/encouraging-scallop

Run tests with 1.28, and add missing tool versions to sanitize allowlist
galaxyproject · Apr 17, 2024 · 050af87 · 050af87
2 parents 60a4ecc + e81042c
commit 050af87
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diff --git a/.github/workflows/test.yaml b/.github/workflows/test.yaml
@@ -34,7 +34,7 @@ jobs:
       - name: Start k8s locally
         uses: jupyterhub/action-k3s-helm@v3
         with:
-          k3s-version: v1.25.15+k3s2  # releases:  https://github.com/k3s-io/k3s/tags
+          k3s-version: v1.28.7+k3s1  # releases:  https://github.com/k3s-io/k3s/tags
           metrics-enabled: false
           traefik-enabled: false
       - name: Verify function of k8s, kubectl, and helm

diff --git a/galaxy/values.yaml b/galaxy/values.yaml
@@ -505,22 +505,35 @@ configs:
     toolshed.g2.bx.psu.edu/repos/bgruening/diff/diff/3.7+galaxy0
     toolshed.g2.bx.psu.edu/repos/bgruening/pharmcat/pharmcat/1.3.1+galaxy0
     toolshed.g2.bx.psu.edu/repos/crs4/taxonomy_krona_chart/taxonomy_krona_chart/2.7.1+galaxy0
-    toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.72+galaxy1
+    toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.74+galaxy0
     toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.73+galaxy0
+    toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.72+galaxy1
+    toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.72
+    toolshed.g2.bx.psu.edu/repos/iuc/dexseq/dexseq/1.44+galaxy0
     toolshed.g2.bx.psu.edu/repos/iuc/dexseq/dexseq/1.28.1+galaxy2
+    toolshed.g2.bx.psu.edu/repos/iuc/fastp/fastp/0.23.2+galaxy0
     toolshed.g2.bx.psu.edu/repos/iuc/fastp/fastp/0.20.1+galaxy0
     toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/jbrowse_to_standalone/1.16.11+galaxy0
     toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/jbrowse_to_standalone/1.16.11+galaxy1
-    toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/jbrowse/1.16.11+galaxy0
     toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/jbrowse/1.16.11+galaxy1
+    toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/jbrowse/1.16.11+galaxy0
     toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_callpeak/2.1.1.20160309.6
     toolshed.g2.bx.psu.edu/repos/iuc/meme_meme/meme_meme/5.0.5.0
+    toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.11+galaxy1
     toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.11+galaxy0
     toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.9+galaxy1
+    toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.8+galaxy1
+    toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.6
+    toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.5.0
     toolshed.g2.bx.psu.edu/repos/iuc/prestor_abseq3/prestor_abseq3/0.6.2+galaxy0
     toolshed.g2.bx.psu.edu/repos/iuc/quast/quast/5.0.2+galaxy3
     toolshed.g2.bx.psu.edu/repos/iuc/seurat/seurat/4.1.0+galaxy0
+    toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff/4.3r.1
+    toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff/4.3+T.galaxy2
     toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff/4.3+T.galaxy1
+    toolshed.g2.bx.psu.edu/repos/bgruening/plotly_regression_performance_plots/plotly_regression_performance_plots/0.1
+    toolshed.g2.bx.psu.edu/repos/bgruening/plotly_parallel_coordinates_plot/plotly_parallel_coordinates_plot/0.2
+    toolshed.g2.bx.psu.edu/repos/bgruening/plotly_parallel_coordinates_plot/plotly_parallel_coordinates_plot/0.1
   build_sites.yml:
     - type: ucsc
       file: "{{if .Values.refdata.enabled}}/cvmfs/data.galaxyproject.org/managed/location/ucsc_build_sites.txt{{else}}/galaxy/server/tool-data/shared/ucsc/ucsc_build_sites.txt.sample{{end}}"