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Accessing singularity
You need to set up Spack first. Once that is done, here is how you access Singularity in an interactive session:
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In docker, you can bind host volumes during runtime with the -v flag. In Singularity, the equivalent flag is -B:
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singularity -B /host/one:/one,/host/two/file.txt:/file.txt example.simg |
This will bind the folder /host/one to /one within the container, and the file /host/two/file.txt to /file.txt within the container.
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Singularity, by default, mirrors the host environment, so you can set the environment there. Alternatively, you can set environment variables by prepending them with SINGULARITYENV. In this example, we set SINGULARITYENV_HELLO, which is accessible within the container as HELLO:
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SINGULARITYENV_HELLO=world singularity exec centos7.img env | grep HELLO
> HELLO=world |
This will overwrite any host environment variables with the same name. If you need to clear the host environment data, use --cleanenv.
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