Fix/ci julia registry and workflow cleanup (#18)

* fix(ci): three workflow root-causes blocking Dependabot PRs

1. ci.yml — Pkg.instantiate() failed with `expected package
   Cliodynamics [...] to be registered`. The project depends on
   hyperpolymath-internal packages (Cliodynamics, Causals, ZeroProb)
   that live in hyperpolymath/julia-ecosystem's General registry, not
   the public Julia General. Add a step that clones the meta-repo and
   copies registries/General into ~/.julia/registries/HyperpolymathGeneral
   before instantiate. (Pkg can't add a registry from a subdir directly,
   so we install it manually.) Also force-add upstream General as a
   fallback for cold caches.

2. codeql.yml — language matrix was `javascript-typescript` on a
   Julia-only repo; CodeQL exited with a configuration error every
   run. Switch to `actions` (matches the fix already shipped to
   JuliaKids.jl#7 and PRComms.jl#7 in this org).

3. hypatia-scan.yml — used `working-directory: ${{ env.HOME }}/hypatia`
   which evaluated to `/hypatia` (env.HOME is not a GHA context — only
   shell $HOME is). Replaced with the current canonical workflow from
   hyperpolymath/hypatia which uses `cd "$HOME/hypatia"` inside the run
   script and builds a fresh escript when needed.

Co-Authored-By: Claude Opus 4.7 (1M context) <noreply@anthropic.com>

* fix(ci): use Pkg.Registry.add(path=…) to install hyperpolymath subdir registry

Julia 1.11 ignores raw directory drops into ~/.julia/registries (it uses
the compressed-registry format with <name>.toml + tarball). Switch to
the documented Pkg.Registry.add(RegistrySpec(path=…)) approach. Init the
subdir as its own git repo so Pkg treats it as a bare-clone source.

Co-Authored-By: Claude Opus 4.7 (1M context) <noreply@anthropic.com>

* fix(ci): install hyperpolymath-internal Julia deps from git URLs

The 'General' registry at hyperpolymath/julia-ecosystem/registries/General
is just a mirror of upstream JuliaRegistries/General — it has the same
name+UUID+repo URL and does NOT contain Cliodynamics, Causals, or
ZeroProb. So pointing Pkg at it changes nothing; the path-based add we
had collapsed into the existing General registry on dedup.

Switch to direct Pkg.add(url=…) for each internal dep. The packages
each have a Project.toml with the matching name+UUID, so Pkg resolves
them cleanly without registry support.

Co-Authored-By: Claude Opus 4.7 (1M context) <noreply@anthropic.com>

* fix(ci): batch internal-dep Pkg.add into single call

Adding Cliodynamics/Causals/ZeroProb one-at-a-time failed: each Pkg.add
re-resolves the whole project, and on call #1 the other two unregistered
deps still cause check_registered to error out before the URL we just
supplied is considered. Bundling all three PackageSpecs into one
Pkg.add gives the resolver every git source up-front.

Co-Authored-By: Claude Opus 4.7 (1M context) <noreply@anthropic.com>

* fix(ci): also Pkg.add AcceleratorGate.jl (transitive via Causals + ZeroProb)

Causals and ZeroProb both list AcceleratorGate in their [deps].
AcceleratorGate isn't registered either, so without its URL the
resolver aborts with 'Unsatisfiable requirements detected'.

Note: this still depends on hyperpolymath/Causals.jl#4 landing first
(removes 9 fictional hardware-accelerator weakdeps with placeholder
UUIDs that no resolver can find).

Co-Authored-By: Claude Opus 4.7 (1M context) <noreply@anthropic.com>

* fix(deps): declare StringDistances dependency

src/parsers.jl line 12 does `using StringDistances` but the package was
missing from Project.toml [deps]. Julia 1.11 precompile failed with:

    ArgumentError: Package InvestigativeJournalist does not have
    StringDistances in its dependencies

StringDistances is a registered package (uuid 88034a9c-...). Add it to
[deps] and constrain to compat = "0.11" (current major).

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

* fix(deps): declare Statistics stdlib so 1.10+ precompile succeeds

The macos rebased CI run failed with:

    ArgumentError: Package InvestigativeJournalist does not have
    Statistics in its dependencies

Julia 1.10+ requires stdlibs to be explicitly listed in [deps] even
when they ship with the runtime. Statistics is used transitively but
not declared. Add it.

Sister to hyperpolymath/PRComms.jl#6 which made the same fix there.

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

---------

Co-authored-by: Claude Opus 4.7 (1M context) <noreply@anthropic.com>

Author: hyperpolymath

.github/workflows/codeql.yml

@@ -30,7 +30,7 @@ jobs:
       fail-fast: false
       matrix:
         include:
-          - language: javascript-typescript
+          - language: actions
             build-mode: none
 
     steps: