scif run working directory

[bilke]

I am running a container with:

singularity run example.simg some_file.prj

some_file.prj is a file in my current working directory on the host. The problem is that inside the container I guess the working directory is set to SCIF-app directory (e.g. /scif/apps/ogs) and consequently my app executable cannot find this file.

When running the container with the following it works:

singularity run example.simg $PWD/some_file.prj

Is the working directory always changed to the SCIF-app directory? More info on my setup below.

The runscript of the container is: exec scif run ogs "$@".

ogs is a SCIF-app:

%appinstall ogs
    ...
%apprun ogs
    exec ogs

Full recipe files:

• Singularity.def, the SCIF-related part is at the end of the file
• ogs.scif

[vsoch]

Yes this is expected behavior. When you run an app it is run in context of that app, meaning it’s directory.

[bilke]

Ok thanks!