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Document the container commandline route, and retire the host-snakemake one Adds two pages that were sitting in the code repository under docs/wiki/ because a pull request cannot reach a wiki: running Spritz from the command line via the container, and running it on a cluster with Apptainer. Both arrived with Spritz #266. Spritz-commandline-usage documented running snakemake directly on the host. Nothing tests that path and it fails on native Windows because of how the workflow builds paths, so it has been replaced with a pointer to the two new pages. Its "external Spritz setup" section is kept rather than deleted: preparing Spritz on a networked machine and moving it to one without network access is a real case that neither new page covers yet. Its snakemake invocations lost "--conda-frontend mamba", which Snakemake 9 no longer accepts. Also documents -g / --fetchGenomes alongside -x, which the new page omitted. -x writes the reference list that shipped with the release, so it goes stale as Ensembl publishes; -g refreshes from Ensembl first, at the cost of needing network access and python. Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>
Change working directory
Remove note about macos dotnet
Update snakemake commandline usage
Add note about aspera-cli
fix typo
macOS installation without homebrew
Add note about macOS installation.
Updated Spritz commandline usage (markdown)
Updated Home (markdown)
Created Spritz commandline usage (markdown)
Updated Adapting the config.yaml file for running Spritz on the commandline (markdown)
Create draft of wiki page
Add page describing WSL2 setup
Add wiki page describing vmmem setup
Initial Home page