fix(cli): report absolute index totals on re-index of unchanged files (#874)

[Dashsoap]

Fixes #874.

What

codegraph index printed "0 nodes, 0 edges" when run after init on an unchanged tree, making it look like the index had been wiped. This makes the CLI report the absolute node/edge totals in that case (e.g. 8 nodes, 11 edges (index already up to date)).

Why

The index was never actually empty — the reporter noted status still worked and re-running init was fine. I reproduced it locally:

$ codegraph init     →  Indexed 2 files · 8 nodes, 11 edges
$ codegraph index    →  Indexed 2 files · 0 nodes, 0 edges     # ← looks wiped
$ codegraph status   →  8 nodes (file 2, function 2, method 2, class 1, import 1)   # ← data intact
$ codegraph query Greeter  →  still returns results

Root cause: indexAll() reports nodesCreated/edgesCreated as the net delta of the run (after - before):

const after = this.queries.getNodeAndEdgeCount();
result.nodesCreated = after.nodes - before.nodes;
result.edgesCreated = after.edges - before.edges;

On a re-index with no file changes, every file’s content hash matches in storeExtractionResult() (it early-returns without re-inserting), so the delta is legitimately 0 — but the index is fully populated. init shows a non-zero count only because it starts from an empty DB (before == 0, so delta == total).

Fix

Add optional totalNodes/totalEdges to IndexResult, populated from the same getNodeAndEdgeCount() the delta already reads (zero extra queries). The CLI prefers the absolute totals when the delta is 0:

8 nodes, 11 edges in 55ms (index already up to date)

Behavior preserved (verified locally)

Case	Output
First full index (empty DB)	8 nodes, 11 edges (delta == total, unchanged)
index --force (clears first)	8 nodes, 11 edges (real rebuild, unchanged)
Changed files	real net delta, no "up to date" suffix
Re-index, unchanged	8 nodes, 11 edges (index already up to date) ← the fix

Tests

Adds __tests__/index-reindex-totals.test.ts pinning that a re-index of unchanged files keeps totalNodes/totalEdges populated while the delta is 0, and that data stays queryable. Full suite green (1377 passed) and tsc --noEmit clean.