From 3d89fde0b632ab11e9a7bbcc1ce3ce027364f93b Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Bj=C3=B6rn=20Gr=C3=BCning?= Date: Tue, 21 Jan 2025 12:04:33 +0100 Subject: [PATCH] change the HOME for tabpfn --- files/galaxy/tpv/tools.yml | 6 ++++++ 1 file changed, 6 insertions(+) diff --git a/files/galaxy/tpv/tools.yml b/files/galaxy/tpv/tools.yml index 9eb62727..ac441a02 100644 --- a/files/galaxy/tpv/tools.yml +++ b/files/galaxy/tpv/tools.yml @@ -42,6 +42,12 @@ tools: toolshed.g2.bx.psu.edu/repos/bgruening/tabpfn/tabpfn/.*: inherits: basic_gpu_resource_param_tool + # This tool is using git to get a huggingface model, it seems that git is easily getting into a locked state on NFS. + # Here we reset the HOME dir in Galaxy to a non-NFS directory. It is true that now multiple tabpfn jobs are updating/cloning into a global directory, + # but since its git, it should work and even be faster for jobs that already find a model. This is not vrey reproducible as the model can change, but this is + # also true if the tool runs on NFS. + env: + HOME: /tmp toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_.*/deeptools_.*/.*: rules: