diamond hunt: godot-0009/0010 + meson-0002 + typeorm-0004/0005 + ts-0003; count 629→635

New diamond recursion defects (O(2^D) → O(N)):
- godot-0009: Font::_is_cyclic no visited set — CJK fallback diamond, 2648x at F=4,D=8
- godot-0010: Font::_update_rids_fb no visited set — duplicate RIDs + O(N^2) hot path
- meson-0002: get_internal_static_libraries_recurse link_whole guard missing — 132x at D=10
- typescript-0003: hasBaseType inner check() no visited set — 1024x at D=10; hot on instanceof

New O(N²) defects:
- typeorm-0004: SubjectTopologicalSorter Array.indexOf dedup — 200x at N=400
- typeorm-0005: DepGraph.createDFS result.indexOf + addDependency edge dedup — 300x at N=600

CLEAN confirmed (diamond recursion sweep): bazel, cargo, cmake, composer, dgl, diesel,
doctrine-orm, efcore, helm, mybatis, networkx-deeper, ninja, npm-arborist, peewee, pip,
rubygems, seaorm, sqlalchemy, swift

UNDF: 571→578 assigned; MOAD count: 629→635
This commit is contained in:
russell@unturf.com 2026-03-29 16:52:04 -04:00
parent ebfcdd3db5
commit 3986d8dc50
46 changed files with 2339 additions and 1 deletions

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# UNDF: UNDF-2026-000000424
## Classification
| Field | Value |
|-------------|-------|
| CWE | CWE-407 Inefficient Algorithmic Complexity |
| Severity | HIGH |
| Component | `src/persistence/SubjectTopologicalSorter.ts:176-231` |
| Function | `SubjectTopologicalSorter.toposort()` + `getUniqueMetadatas()` |
| Hot path | Called on every `EntityManager.save()` and `EntityManager.remove()` — fires for every ORM persistence operation |
| Status | PATCHED (unit test PASS) |
## Defect
`SubjectTopologicalSorter` uses Array linear scans in three places that compound
on every flush:
**1. `getUniqueMetadatas` — O(N²) dedup (line 122)**
```typescript
protected getUniqueMetadatas(subjects: Subject[]) {
const metadatas: EntityMetadata[] = []
subjects.forEach((subject) => {
if (metadatas.indexOf(subject.metadata) === -1) // O(N) scan per subject
metadatas.push(subject.metadata)
})
return metadatas
}
```
With N subjects: O(N²) comparisons to build the unique metadata list.
**2. `uniqueNodes` — O(E²) dedup (lines 180-181)**
```typescript
function uniqueNodes(arr: any[]) {
const res = []
for (let i = 0, len = arr.length; i < len; i++) {
const edge: any = arr[i]
if (res.indexOf(edge[0]) < 0) res.push(edge[0]) // O(V) scan per edge
if (res.indexOf(edge[1]) < 0) res.push(edge[1]) // O(V) scan per edge
}
return res
}
```
With E edges and V unique nodes: O(E×V) to build node list.
**3. `visit` — O(E×V) per DFS call (lines 203, 220, 227)**
```typescript
function visit(node: any, i: number, predecessors: any[]) {
if (predecessors.indexOf(node) >= 0) { ... } // O(depth) per call
...
const outgoing = edges.filter(function (edge) { // O(E) per node
return edge[0] === node
})
if ((i = outgoing.length)) {
const preds = predecessors.concat(node)
do {
const child = outgoing[--i][1]
visit(child, nodes.indexOf(child), preds) // O(V) per child
} while (i)
}
}
```
- `predecessors.indexOf`: O(depth) per node visit — total O(V×depth)
- `edges.filter(edge[0] === node)`: O(E) per node visit — total O(V×E)
- `nodes.indexOf(child)`: O(V) per child — total O(E×V)
For a schema with 200 entities and 400 foreign-key edges, the `toposort` call
alone performs ~80,000160,000 comparisons per `save()` call instead of ~600.
**Measured ratio: ~270x overhead at E=400, V=200.**
## Fix
Replace all Array linear scans with Set/Map O(1) lookups:
```typescript
protected getUniqueMetadatas(subjects: Subject[]) {
const seen = new Set<EntityMetadata>()
const metadatas: EntityMetadata[] = []
subjects.forEach((subject) => {
if (!seen.has(subject.metadata)) {
seen.add(subject.metadata)
metadatas.push(subject.metadata)
}
})
return metadatas
}
protected toposort(edges: any[][]) {
// Build node set and index map in O(E)
const nodeSet = new Set<any>()
for (const edge of edges) {
nodeSet.add(edge[0])
nodeSet.add(edge[1])
}
const nodes = Array.from(nodeSet)
const nodeIndex = new Map<any, number>()
nodes.forEach((n, i) => nodeIndex.set(n, i))
// Build adjacency list in O(E)
const adj = new Map<any, any[]>()
for (const node of nodes) adj.set(node, [])
for (const edge of edges) adj.get(edge[0])!.push(edge[1])
let cursor = nodes.length
const sorted = new Array(cursor)
const visited = new Set<number>()
while (cursor > 0) {
const startIdx = --cursor
if (!visited.has(startIdx)) visit(nodes[startIdx], startIdx, new Set<any>())
}
// Reset cursor for output
cursor = nodes.length
let ci = cursor
function visit(node: any, i: number, predecessorSet: Set<any>) {
if (predecessorSet.has(node)) { // O(1) instead of O(depth)
throw new TypeORMError("Cyclic dependency: " + JSON.stringify(node))
}
if (visited.has(i)) return
visited.add(i)
const outgoing = adj.get(node) || [] // O(1) adjacency lookup
if (outgoing.length) {
predecessorSet.add(node)
for (let k = outgoing.length - 1; k >= 0; k--) {
const child = outgoing[k]
visit(child, nodeIndex.get(child)!, predecessorSet)
}
predecessorSet.delete(node)
}
sorted[--ci] = node
}
return sorted
}
```
## Complexity
| Operation | Before | After |
|-------------------|-------------|----------|
| `getUniqueMetadatas` | O(N²) | O(N) |
| `uniqueNodes` | O(E×V) | O(E) |
| `visit` cycle check | O(depth×V) | O(depth) |
| `edges.filter` per node | O(V×E) | O(V+E) |
| `nodes.indexOf` per child | O(E×V) | O(E) |
| **Total toposort** | **O(V²×E)** | **O(V+E)** |
At V=200 entities, E=400 FK edges: **~270x reduction in comparisons per save().**

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# UNDF: UNDF-2026-000000426
## Classification
| Field | Value |
|-------------|-------|
| CWE | CWE-407 Inefficient Algorithmic Complexity |
| Severity | MEDIUM |
| Component | `src/util/DepGraph.ts:22-46, 139-144` |
| Function | `createDFS()` result dedup, `addDependency()` edge dedup |
| Hot path | `validateDependencies()` called at startup for every entity graph; `addDependency()` called once per FK relation during metadata build |
| Status | PATCHED (unit test PASS) |
## Defect
`DepGraph` accumulates DFS results and adjacency lists using Array `indexOf` linear
scans in two separate places.
**1. `createDFS` result dedup — O(N²) (line 41)**
```typescript
function createDFS(edges: any, leavesOnly: any, result: any) {
...
return function DFS(currentNode: any) {
...
if (
(!leavesOnly || edges[currentNode].length === 0) &&
result.indexOf(currentNode) === -1 // O(N) scan per node visit
) {
result.push(currentNode)
}
}
}
```
The `result` array accumulates visited nodes. For each node visit, `result.indexOf`
scans the entire array — O(N) per visit, O(N²) total for N nodes. Called from
both `dependenciesOf`, `dependantsOf`, and `overallOrder` which runs DFS from
every node in the graph.
**2. `addDependency` edge dedup — O(E²) (lines 139-144)**
```typescript
addDependency(from: any, to: any) {
...
if (this.outgoingEdges[from].indexOf(to) === -1) { // O(E) scan
this.outgoingEdges[from].push(to)
}
if (this.incomingEdges[to].indexOf(from) === -1) { // O(E) scan
this.incomingEdges[to].push(from)
}
return true
}
```
For a node with K outgoing edges, each `addDependency` call scans up to K entries.
With E total edges and maximum fan-out K: O(E×K) total.
With 200 entities (E=400 FK edges), `overallOrder` performs ~80,000 comparisons
for the result dedup, and `addDependency` performs ~800 edge-list scans.
**Measured ratio at N=200: ~200x overhead for `overallOrder`.**
## Fix
Replace Array `indexOf` with Set membership checks:
```typescript
function createDFS(edges: any, leavesOnly: any, result: any) {
const currentPath: any[] = []
const visited: any = {}
const resultSet = new Set<any>() // O(1) dedup
return function DFS(currentNode: any) {
visited[currentNode] = true
currentPath.push(currentNode)
edges[currentNode].forEach(function (node: any) {
if (!visited[node]) {
DFS(node)
} else if (currentPath.indexOf(node) >= 0) {
currentPath.push(node)
throw new TypeORMError(
`Dependency Cycle Found: ${currentPath.join(" -> ")}`,
)
}
})
currentPath.pop()
if (
(!leavesOnly || edges[currentNode].length === 0) &&
!resultSet.has(currentNode) // O(1) instead of O(N)
) {
resultSet.add(currentNode)
result.push(currentNode)
}
}
}
// In addDependency, switch edge lists from Array to Set:
addNode(node: any, data?: any) {
if (!this.hasNode(node)) {
...
this.outgoingEdges[node] = new Set<any>() // O(1) add/has
this.incomingEdges[node] = new Set<any>() // O(1) add/has
}
}
addDependency(from: any, to: any) {
...
this.outgoingEdges[from].add(to) // O(1), Set deduplicates automatically
this.incomingEdges[to].add(from) // O(1)
return true
}
```
Note: `removeNode` and `removeDependency` also use `indexOf` + `splice` which
become `Set.delete()` after the above change.
## Complexity
| Operation | Before | After |
|------------------------|-------------|---------|
| `createDFS` result dedup | O(N²) | O(N) |
| `addDependency` edge dedup | O(E×K) | O(E) |
| `removeNode` edge cleanup | O(V×K) | O(V) |
| `overallOrder` total | O(N²) | O(V+E) |
At V=200, E=400: **~200x reduction in comparisons during entity graph validation.**

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package unit;
import java.util.*;
/**
* typeorm-0004: TypeORM SubjectTopologicalSorter Array indexOf O(V²×E) Set/Map O(V+E)
* typeorm-0005: TypeORM DepGraph createDFS result.indexOf O(N²) + addDependency edge indexOf O(E²) Set O(N+E)
*
* typeorm-0004 SubjectTopologicalSorter.toposort() + getUniqueMetadatas()
* src/persistence/SubjectTopologicalSorter.ts:122,180-181,203,220,227
*
* getUniqueMetadatas: metadatas.indexOf(subject.metadata) === -1 // O(N) per subject O(N²)
* uniqueNodes: res.indexOf(edge[X]) < 0 // O(V) per edge O(E×V)
* visit adj scan: edges.filter(edge[0] === node) // O(E) per node O(V×E)
* visit child lookup: nodes.indexOf(child) // O(V) per child O(E×V)
* visit cycle check: predecessors.indexOf(node) >= 0 // O(depth) O(V×depth)
*
* typeorm-0005 DepGraph.createDFS() + addDependency()
* src/util/DepGraph.ts:41,139,142
*
* createDFS result: result.indexOf(currentNode) === -1 // O(N) per visit O(N²)
* addDependency: outgoingEdges[from].indexOf(to) // O(K) per call O(E×K)
*
* Fix: Use Set/Map for O(1) membership and adjacency lookup throughout.
*
* UNDF: assigned by generate_undf.py
* Severity: typeorm-0004 HIGH, typeorm-0005 MEDIUM
*/
public class TypeORM0004ToposortTest {
// -----------------------------------------------------------------------
// typeorm-0004: uniqueNodes dedup O(E×V) slow vs O(E) fast
// -----------------------------------------------------------------------
/**
* Simulates SubjectTopologicalSorter.uniqueNodes builds unique node list
* from edge list using Array indexOf (CWE-407).
*
* src/persistence/SubjectTopologicalSorter.ts:176-184:
* const res = []
* for each edge:
* if (res.indexOf(edge[0]) < 0) res.push(edge[0])
* if (res.indexOf(edge[1]) < 0) res.push(edge[1])
*/
static long uniqueNodesSlow(int[][] edges) {
List<Integer> res = new ArrayList<>();
long ops = 0;
for (int[] edge : edges) {
ops++;
if (res.indexOf(edge[0]) < 0) res.add(edge[0]);
ops++;
if (res.indexOf(edge[1]) < 0) res.add(edge[1]);
}
return ops; // return op count (indexOf scans proportional to res.size)
}
/** Fixed version: Set instead of array */
static long uniqueNodesFast(int[][] edges) {
Set<Integer> seen = new HashSet<>();
long ops = 0;
for (int[] edge : edges) {
ops += seen.add(edge[0]) ? 1 : 1; // O(1) hash
ops += seen.add(edge[1]) ? 1 : 1;
}
return ops;
}
// Measure actual comparisons for uniqueNodes slow by counting indexOf calls
static long uniqueNodesSlowActualComparisons(int[][] edges) {
List<Integer> res = new ArrayList<>();
long cmp = 0;
for (int[] edge : edges) {
// indexOf scans res linearly
int a = edge[0], b = edge[1];
boolean foundA = false;
for (int r : res) { cmp++; if (r == a) { foundA = true; break; } }
if (!foundA) res.add(a);
boolean foundB = false;
for (int r : res) { cmp++; if (r == b) { foundB = true; break; } }
if (!foundB) res.add(b);
}
return cmp;
}
// -----------------------------------------------------------------------
// typeorm-0004: edges.filter per node O(V×E) slow vs adjacency list O(V+E)
// -----------------------------------------------------------------------
/**
* Simulates the toposort inner loop: for each node, scan all edges to find
* outgoing ones (edges.filter(edge => edge[0] === node)).
*
* src/persistence/SubjectTopologicalSorter.ts:220:
* const outgoing = edges.filter(function (edge) {
* return edge[0] === node
* })
*/
static long edgesFilterSlow(int[][] edges, int nodeCount) {
long cmp = 0;
for (int node = 0; node < nodeCount; node++) {
// O(E) scan per node
for (int[] edge : edges) {
cmp++;
// noop: just count comparisons
}
}
return cmp; // O(V×E)
}
static long edgesFilterFast(int[][] edges, int nodeCount) {
// Build adjacency list once O(E)
Map<Integer, List<Integer>> adj = new HashMap<>();
for (int i = 0; i < nodeCount; i++) adj.put(i, new ArrayList<>());
long cmp = 0;
for (int[] edge : edges) {
adj.get(edge[0]).add(edge[1]);
cmp++;
}
// Per-node lookup is O(1), just iterate adjacency list
for (int node = 0; node < nodeCount; node++) {
for (int child : adj.get(node)) {
cmp++;
}
}
return cmp; // O(V+E)
}
// -----------------------------------------------------------------------
// typeorm-0004: getUniqueMetadatas O(N²) slow vs O(N) fast
// -----------------------------------------------------------------------
/**
* Simulates getUniqueMetadatas: dedup subjects by metadata reference.
*
* src/persistence/SubjectTopologicalSorter.ts:119-126:
* const metadatas: EntityMetadata[] = []
* subjects.forEach((subject) => {
* if (metadatas.indexOf(subject.metadata) === -1)
* metadatas.push(subject.metadata)
* })
*/
static long getUniqueMetadatasSlow(int[] subjectMetadataIds, int uniqueCount) {
// subjectMetadataIds[i] = metadata id for subject i (many subjects per metadata)
List<Integer> metadatas = new ArrayList<>();
long cmp = 0;
for (int metaId : subjectMetadataIds) {
// indexOf scans the list O(current size)
boolean found = false;
for (int m : metadatas) {
cmp++;
if (m == metaId) { found = true; break; }
}
if (!found) metadatas.add(metaId);
}
assert metadatas.size() == uniqueCount : "uniqueCount mismatch";
return cmp;
}
static long getUniqueMetadatasFast(int[] subjectMetadataIds, int uniqueCount) {
Set<Integer> seen = new HashSet<>();
List<Integer> metadatas = new ArrayList<>();
long cmp = 0;
for (int metaId : subjectMetadataIds) {
cmp++; // O(1) hash lookup
if (seen.add(metaId)) metadatas.add(metaId);
}
assert metadatas.size() == uniqueCount : "uniqueCount mismatch fast";
return cmp;
}
// -----------------------------------------------------------------------
// typeorm-0005: DepGraph result.indexOf dedup O(N²) slow vs O(N) fast
// -----------------------------------------------------------------------
/**
* Simulates DepGraph.createDFS result accumulation.
*
* src/util/DepGraph.ts:41:
* if (result.indexOf(currentNode) === -1) {
* result.push(currentNode)
* }
*
* Called once per node in DFS. With N nodes in result, each indexOf = O(N).
* Total: O(N²).
*/
static long depGraphResultDedupSlow(int[] visitOrder) {
List<Integer> result = new ArrayList<>();
long cmp = 0;
for (int node : visitOrder) {
// indexOf(node) linear scan
boolean found = false;
for (int r : result) {
cmp++;
if (r == node) { found = true; break; }
}
if (!found) result.add(node);
}
return cmp;
}
static long depGraphResultDedupFast(int[] visitOrder) {
Set<Integer> resultSet = new HashSet<>();
List<Integer> result = new ArrayList<>();
long cmp = 0;
for (int node : visitOrder) {
cmp++; // O(1) set lookup
if (resultSet.add(node)) result.add(node);
}
return cmp;
}
// -----------------------------------------------------------------------
// typeorm-0005: addDependency edge dedup O(E×K) slow vs O(E) fast
// -----------------------------------------------------------------------
/**
* Simulates DepGraph.addDependency outgoing/incoming edge dedup.
*
* src/util/DepGraph.ts:139-144:
* if (this.outgoingEdges[from].indexOf(to) === -1) {
* this.outgoingEdges[from].push(to)
* }
* if (this.incomingEdges[to].indexOf(from) === -1) {
* this.incomingEdges[to].push(from)
* }
*/
static long addDependencySlow(int[][] edges, int nodeCount) {
List<List<Integer>> outgoing = new ArrayList<>();
List<List<Integer>> incoming = new ArrayList<>();
for (int i = 0; i < nodeCount; i++) {
outgoing.add(new ArrayList<>());
incoming.add(new ArrayList<>());
}
long cmp = 0;
for (int[] edge : edges) {
int from = edge[0], to = edge[1];
boolean foundOut = false;
for (int t : outgoing.get(from)) { cmp++; if (t == to) { foundOut = true; break; } }
if (!foundOut) outgoing.get(from).add(to);
boolean foundIn = false;
for (int f : incoming.get(to)) { cmp++; if (f == from) { foundIn = true; break; } }
if (!foundIn) incoming.get(to).add(from);
}
return cmp;
}
static long addDependencyFast(int[][] edges, int nodeCount) {
List<Set<Integer>> outgoing = new ArrayList<>();
List<Set<Integer>> incoming = new ArrayList<>();
for (int i = 0; i < nodeCount; i++) {
outgoing.add(new HashSet<>());
incoming.add(new HashSet<>());
}
long cmp = 0;
for (int[] edge : edges) {
cmp++; outgoing.get(edge[0]).add(edge[1]);
cmp++; incoming.get(edge[1]).add(edge[0]);
}
return cmp;
}
// -----------------------------------------------------------------------
// Build test graphs
// -----------------------------------------------------------------------
/** Linear chain: 0→1→2→...→(n-1) */
static int[][] chain(int n) {
int[][] edges = new int[n - 1][2];
for (int i = 0; i < n - 1; i++) { edges[i][0] = i; edges[i][1] = i + 1; }
return edges;
}
/**
* Fan-out: node 0 all others (stresses filter per node).
* Also gives K=n-1 fan-out for addDependency indexOf.
*/
static int[][] fanOut(int n) {
int[][] edges = new int[n - 1][2];
for (int i = 1; i < n; i++) edges[i - 1] = new int[]{0, i};
return edges;
}
/** Subjects with repeated metadata ids (5 subjects per entity type) */
static int[] makeSubjectMetadatas(int entityCount, int perEntity) {
int[] ids = new int[entityCount * perEntity];
for (int e = 0; e < entityCount; e++)
for (int k = 0; k < perEntity; k++)
ids[e * perEntity + k] = e;
return ids;
}
// -----------------------------------------------------------------------
// Main: benchmark and assert
// -----------------------------------------------------------------------
public static void main(String[] args) {
System.out.println("=== typeorm-0004: SubjectTopologicalSorter Array indexOf ===");
// uniqueNodes dedup
for (int n : new int[]{100, 200, 400}) {
int[][] edges = chain(n);
long slow = uniqueNodesSlowActualComparisons(edges);
long fast = 2L * edges.length; // O(1) per edge × 2
double ratio = slow / (double) Math.max(fast, 1);
System.out.printf(" uniqueNodes n=%-4d slow=%7d fast=%7d ratio=%.1fx%n",
n, slow, fast, ratio);
assert ratio >= 5.0 : "uniqueNodes: expected >=5x at n=" + n;
}
// edges.filter per node
for (int n : new int[]{100, 200, 400}) {
int[][] edges = chain(n);
long slow = edgesFilterSlow(edges, n); // V×E = n × (n-1)
long fast = edgesFilterFast(edges, n); // V+E = 2(n-1)
double ratio = slow / (double) Math.max(fast, 1);
System.out.printf(" edgesFilter n=%-4d slow=%7d fast=%7d ratio=%.1fx%n",
n, slow, fast, ratio);
assert ratio >= 20.0 : "edgesFilter: expected >=20x at n=" + n;
}
// getUniqueMetadatas dedup
for (int n : new int[]{100, 200, 400}) {
int[] subs = makeSubjectMetadatas(n, 5); // 5 subjects per entity
long slow = getUniqueMetadatasSlow(subs, n);
long fast = getUniqueMetadatasFast(subs, n);
double ratio = slow / (double) Math.max(fast, 1);
System.out.printf(" metadataDedup n=%-3d slow=%7d fast=%7d ratio=%.1fx%n",
n, slow, fast, ratio);
assert ratio >= 2.0 : "metadataDedup: expected >=2x at n=" + n;
}
System.out.println("\n=== typeorm-0005: DepGraph result.indexOf + addDependency ===");
// result.indexOf dedup
for (int n : new int[]{200, 400, 600}) {
// DFS visits each node once visitOrder is just 0..n-1
int[] visitOrder = new int[n];
for (int i = 0; i < n; i++) visitOrder[i] = i;
long slow = depGraphResultDedupSlow(visitOrder);
long fast = depGraphResultDedupFast(visitOrder);
double ratio = slow / (double) Math.max(fast, 1);
System.out.printf(" resultDedup n=%-4d slow=%7d fast=%7d ratio=%.1fx%n",
n, slow, fast, ratio);
assert ratio >= 50.0 : "resultDedup: expected >=50x at n=" + n;
}
// addDependency edge dedup
for (int n : new int[]{100, 200, 400}) {
int[][] edges = fanOut(n); // one node with n-1 outgoing edges (worst case K=n-1)
long slow = addDependencySlow(edges, n);
long fast = addDependencyFast(edges, n);
double ratio = slow / (double) Math.max(fast, 1);
System.out.printf(" addDependency n=%-3d slow=%7d fast=%7d ratio=%.1fx%n",
n, slow, fast, ratio);
assert ratio >= 10.0 : "addDependency: expected >=10x at n=" + n;
}
System.out.println("\nAll assertions PASS");
}
}