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dnanexus-archive / parliament2

Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
Apache License 2.0
102 stars 39 forks source link

Can this be built on a non docker environment. #42

Closed RoydenClark closed 5 years ago

RoydenClark commented 5 years ago

Our current HPC environment does not have nor does it currently allow docker installations. Is there any way to build this from source without docker environment?

Thank you

slzarate commented 5 years ago

Hi,

Parliament2 requires a Docker environment, as we use Docker to manage the dependencies required (of which there are many). We do not currently have any plans to migrate away from using Docker.

However, Parliament2 has also been implemented on DNAnexus: https://www.dnanexus.com/. You can use DNAnexus to run Parliament2 without having to install Docker.

Samantha

slzarate commented 5 years ago

If you are interested in running Parliament2 on Singularity, see here for my response to this feature request: https://github.com/dnanexus/parliament2/issues/41