Merge pull request #1262 from sanjaysrikakulam/squidpy_spatial_tmp_dir

squidpy spatial tool: mount host tmp dir as containers tmp dir
usegalaxy-eu · Jul 19, 2024 · 8499e8a · 8499e8a
2 parents d5b0e19 + e82c1bc
commit 8499e8a
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/files/galaxy/tpv/tools.yml b/files/galaxy/tpv/tools.yml
@@ -327,8 +327,8 @@ tools:
   toolshed.g2.bx.psu.edu/repos/goeckslab/squidpy/squidpy_spatial/*:
     inherits: basic_docker_tool
     mem: 6
-    params:
-      docker_run_extra_arguments: "--mount type=tmpfs,tmpfs-size=2147483648,destination=/tmp"
+    env:
+      _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/goeckslab/vitessce_spatial/vitessce_spatial/.*: