Add calibration and restart point pages, and note the shared Spack recipes Calibrating a Model and Making a Restart Point cover the Template's chapter C workflows, including the new workflow-restart_point.R, with lessons from the LA-PrEP CABARET calibration. The Spack page no longer warns about a 1.2 GB first-run download, since the lab now shares one copy of the recipes.
Reorganize the wiki as a learning path and update it for current practice Rewrites most pages against the current EpiModelHIV-Template (v3.3.x), R 4.6.1 and 4.5.1 via Spack, and the current RSPH partitions. Adds pages for local setup, HPC rules and storage, job monitoring, project workflows, processing results, a glossary, and contributing, plus a sidebar and footer. Merges overlapping pages and fixes names, keeping the page names and anchors that other repos link to.