feat: update bigsky module initialization

[rroutsong]

Update to reflect the new lua module load infrastructure of bigsky.

[ewalt98]

Looks like several other lines need updating in config.py: line 134 and line 173. Both refer to the /gs1/ dir structure of the old BigSky.

Would line 172 in utils.py need to be updated as well to load the correct version of snakemake?

[rroutsong]

Looks like several other lines need updating in config.py: line 134 and line 173. Both refer to the /gs1/ dir structure of the old BigSky.

Line 134 is related to the previous finding logic we had for weave, whereby you could enter a run identifier and it would pick it up in the directory. Do you have a new landing directory for RML on bigsky?

Same for line 173

Would line 172 in utils.py need to be updated as well to load the correct version of snakemake?

Line 172 is the correct version of snakemake, the profiles bit needs a little more work to be compatible with snakemake 8+, if possible.

[ewalt98]

Line 134 is related to the previous finding logic we had for weave, whereby you could enter a run identifier and it would pick it up in the directory. Do you have a new landing directory for RML on bigsky?

Same for line 173

The new directory structure is /data/rml_ngs/SequencerRuns/

[skchronicles]

Thank you for updating this for the BigSky changes. It looks great!

The only other thing I would update is the install documentation. It appears to be out of date.

Here is the path to the file.

docs/install.md

The section for BigSky still refers to the /gs1 filesystem and references spack.

[skchronicles]

You may want to test this out but here is a file that could be used to add deps to the users path:

/data/openomics/bin/source_weave.sh

[rroutsong]

You may want to test this out but here is a file that could be used to add deps to the users path:

/data/openomics/bin/source_weave.sh

this is already up to date