Merge branch 'master' of github.com:martindemko/infrastructure-playbook

usegalaxy-eu · Jul 31, 2024 · b823634 · b823634
2 parents b7f0b42 + be72ba9
commit b823634
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diff --git a/files/galaxy/tpv/interactive_tools.yml b/files/galaxy/tpv/interactive_tools.yml
@@ -244,6 +244,9 @@ tools:
   interactive_tool_jupyter_notebook:
     inherits: interactive_tool
     mem: 4
+    params:
+      # needed for > quay.io/bgruening/docker-jupyter-notebook:24.07, this image starts as root but drops privileges
+      docker_run_extra_arguments: "-e NB_UID=999"
     env:
       HOME: /home/jovyan
 

diff --git a/files/galaxy/tpv/tools.yml b/files/galaxy/tpv/tools.yml
@@ -331,6 +331,8 @@ tools:
       _GALAXY_JOB_TMP_DIR: '/tmp'
   toolshed.g2.bx.psu.edu/repos/goeckslab/gate_finder/gate_finder/.*:
     inherits: basic_docker_tool
+  toolshed.g2.bx.psu.edu/repos/galaxyp/qupath_roi_splitter/qupath_roi_splitter/.*:
+    inherits: basic_docker_tool
   toolshed.g2.bx.psu.edu/repos/goeckslab/vitessce_spatial/vitessce_spatial/.*:
     inherits: basic_docker_tool
   toolshed.g2.bx.psu.edu/repos/bgruening/cellpose/cellpose/.*: