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Feat/use memory pools #1

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Nov 30, 2024
Merged

Feat/use memory pools #1

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9b2ef8e
fear(memory-pool): use memory pools to allocate objects
yamafaktory Nov 25, 2024
4922ce5
chore(state): save current changes
yamafaktory Nov 27, 2024
bfd4bbc
feat(memory-pools): finalize implementation
yamafaktory Nov 30, 2024
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4 changes: 2 additions & 2 deletions src/bench.zig
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Original file line number Diff line number Diff line change
Expand Up @@ -70,9 +70,9 @@ pub fn main() !void {
var bench = try Bench.init(allocator, stdout, "generate 1_000 hyperedges with 1_000 vertices each in batches");
for (0..1_000) |_| {
vertices.clearRetainingCapacity();
const h = bench.graph.createHyperedgeAssumeCapacity(.{});
const h = try bench.graph.createHyperedgeAssumeCapacity(.{});
for (0..1_000) |_| {
const id = bench.graph.createVertexAssumeCapacity(.{});
const id = try bench.graph.createVertexAssumeCapacity(.{});
try vertices.append(id);
}
try bench.graph.appendVerticesToHyperedge(h, vertices.items);
Expand Down
106 changes: 68 additions & 38 deletions src/hypergraphz.zig
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Original file line number Diff line number Diff line change
Expand Up @@ -10,13 +10,14 @@ const ArenaAllocator = std.heap.ArenaAllocator;
const ArrayList = std.ArrayList;
const AutoHashMap = std.AutoHashMap;
const AutoArrayHashMap = std.array_hash_map.AutoArrayHashMap;
const MemoryPool = std.heap.MemoryPool;
const MultiArrayList = std.MultiArrayList;
const PriorityQueue = std.PriorityQueue;
const assert = std.debug.assert;
const debug = std.log.debug;
const window = std.mem.window;

pub const HypergraphZId = usize;
pub const HypergraphZId = u32;

/// HypergraphZ errors.
pub const HypergraphZError = (error{
Expand All @@ -36,12 +37,16 @@ pub fn HypergraphZ(comptime H: type, comptime V: type) type {

/// The allocator used by the HypergraphZ instance.
allocator: Allocator,
/// A hashmap of hyperedges.
/// A hashmap of hyperedges data and relations.
hyperedges: AutoArrayHashMap(HypergraphZId, HyperedgeDataRelations),
/// A hashmap of vertices.
/// A memory pool for hyperedges data.
hyperedges_pool: MemoryPool(H),
/// A hashmap of vertices data and relations.
vertices: AutoArrayHashMap(HypergraphZId, VertexDataRelations),
/// A memory pool for vertices data.
vertices_pool: MemoryPool(V),
/// Internal counter for both the hyperedges and vertices ids.
id_counter: usize = 0,
id_counter: HypergraphZId = 0,

comptime {
assert(@typeInfo(H) == .Struct);
Expand All @@ -58,13 +63,13 @@ pub fn HypergraphZ(comptime H: type, comptime V: type) type {

/// Vertex representation with data and relations as an array hashmap.
const VertexDataRelations = struct {
data: V,
data: *V,
relations: AutoArrayHashMap(HypergraphZId, void),
};

/// Hyperedge representation with data and relations as an array list.
const HyperedgeDataRelations = struct {
data: H,
data: *H,
relations: ArrayList(HypergraphZId),
};

Expand All @@ -83,17 +88,23 @@ pub fn HypergraphZ(comptime H: type, comptime V: type) type {
var h = AutoArrayHashMap(HypergraphZId, HyperedgeDataRelations).init(allocator);
var v = AutoArrayHashMap(HypergraphZId, VertexDataRelations).init(allocator);

// Memory pools for hyperedges and vertices.
var h_pool = MemoryPool(H).init(allocator);
var v_pool = MemoryPool(V).init(allocator);

if (config.hyperedges_capacity) |c| {
try h.ensureTotalCapacity(c);
assert(h.capacity() >= c);
h_pool = try MemoryPool(H).initPreheated(allocator, c);
}

if (config.vertices_capacity) |c| {
try v.ensureTotalCapacity(c);
assert(v.capacity() >= c);
v_pool = try MemoryPool(V).initPreheated(allocator, c);
}

return .{ .allocator = allocator, .hyperedges = h, .vertices = v };
return .{ .allocator = allocator, .hyperedges = h, .vertices = v, .hyperedges_pool = h_pool, .vertices_pool = v_pool };
}

/// Deinit the HypergraphZ instance.
Expand All @@ -113,6 +124,8 @@ pub fn HypergraphZ(comptime H: type, comptime V: type) type {
// Finally deinit all entities and the struct itself.
self.hyperedges.deinit();
self.vertices.deinit();
self.hyperedges_pool.deinit();
self.vertices_pool.deinit();
self.* = undefined;
}

Expand All @@ -125,15 +138,19 @@ pub fn HypergraphZ(comptime H: type, comptime V: type) type {
/// Create a new hyperedge.
pub fn createHyperedge(self: *Self, hyperedge: H) HypergraphZError!HypergraphZId {
const id = self._getId();
try self.hyperedges.put(id, .{ .relations = ArrayList(HypergraphZId).init(self.allocator), .data = hyperedge });
const h = try self.hyperedges_pool.create();
h.* = hyperedge;
try self.hyperedges.put(id, .{ .relations = ArrayList(HypergraphZId).init(self.allocator), .data = h });

return id;
}

/// Create a new hyperedge assuming there is enough capacity.
pub fn createHyperedgeAssumeCapacity(self: *Self, hyperedge: H) HypergraphZId {
pub fn createHyperedgeAssumeCapacity(self: *Self, hyperedge: H) HypergraphZError!HypergraphZId {
const id = self._getId();
self.hyperedges.putAssumeCapacity(id, .{ .relations = ArrayList(HypergraphZId).init(self.allocator), .data = hyperedge });
const h = try self.hyperedges_pool.create();
h.* = hyperedge;
self.hyperedges.putAssumeCapacity(id, .{ .relations = ArrayList(HypergraphZId).init(self.allocator), .data = h });

return id;
}
Expand All @@ -146,15 +163,19 @@ pub fn HypergraphZ(comptime H: type, comptime V: type) type {
/// Create a new vertex.
pub fn createVertex(self: *Self, vertex: V) HypergraphZError!HypergraphZId {
const id = self._getId();
try self.vertices.put(id, .{ .relations = AutoArrayHashMap(HypergraphZId, void).init(self.allocator), .data = vertex });
const v = try self.vertices_pool.create();
v.* = vertex;
try self.vertices.put(id, .{ .relations = AutoArrayHashMap(HypergraphZId, void).init(self.allocator), .data = v });

return id;
}

/// Create a new vertex assuming there is enough capacity.
pub fn createVertexAssumeCapacity(self: *Self, vertex: V) HypergraphZId {
pub fn createVertexAssumeCapacity(self: *Self, vertex: V) HypergraphZError!HypergraphZId {
const id = self._getId();
self.vertices.putAssumeCapacity(id, .{ .relations = AutoArrayHashMap(HypergraphZId, void).init(self.allocator), .data = vertex });
const v = try self.vertices_pool.create();
v.* = vertex;
self.vertices.putAssumeCapacity(id, .{ .relations = AutoArrayHashMap(HypergraphZId, void).init(self.allocator), .data = v });

return id;
}
Expand Down Expand Up @@ -198,7 +219,7 @@ pub fn HypergraphZ(comptime H: type, comptime V: type) type {

const hyperedge = self.hyperedges.get(id).?;

return hyperedge.data;
return hyperedge.data.*;
}

/// Get a vertex.
Expand All @@ -207,7 +228,7 @@ pub fn HypergraphZ(comptime H: type, comptime V: type) type {

const hyperedge = self.vertices.get(id).?;

return hyperedge.data;
return hyperedge.data.*;
}

/// Get all the hyperedges.
Expand All @@ -224,14 +245,14 @@ pub fn HypergraphZ(comptime H: type, comptime V: type) type {
pub fn updateHyperedge(self: *Self, id: HypergraphZId, hyperedge: H) HypergraphZError!void {
try self.checkIfHyperedgeExists(id);

self.hyperedges.getPtr(id).?.data = hyperedge;
self.hyperedges.getPtr(id).?.data.* = hyperedge;
}

/// Update a vertex.
pub fn updateVertex(self: *Self, id: HypergraphZId, vertex: V) HypergraphZError!void {
try self.checkIfVertexExists(id);

self.vertices.getPtr(id).?.data = vertex;
self.vertices.getPtr(id).?.data.* = vertex;
}

/// Get the indegree of a vertex.
Expand Down Expand Up @@ -380,6 +401,9 @@ pub fn HypergraphZ(comptime H: type, comptime V: type) type {
const vertex = self.vertices.getPtr(v);
// A vertex can appear multiple times within a hyperedge and thus might already be deleted.
if (vertex) |ptr| {
// Remove from the vertices pool.
self.vertices_pool.destroy(@alignCast(ptr.data));

// Release memory.
ptr.relations.deinit();
const removed = self.vertices.orderedRemove(v);
Expand All @@ -397,6 +421,9 @@ pub fn HypergraphZ(comptime H: type, comptime V: type) type {
}
}

// Remove from the hyperedges pool.
self.hyperedges_pool.destroy(hyperedge.data);

// Release memory.
hyperedge.relations.deinit();

Expand Down Expand Up @@ -429,6 +456,9 @@ pub fn HypergraphZ(comptime H: type, comptime V: type) type {
std.mem.swap(ArrayList(HypergraphZId), &hyperedge.relations, &tmp);
}

// Remove from the vertices pool.
self.vertices_pool.destroy(@alignCast(vertex.data));

// Release memory.
vertex.relations.deinit();

Expand Down Expand Up @@ -1053,17 +1083,17 @@ const Data = struct {
h_c: HypergraphZId,
};
fn generateTestData(graph: *HypergraphZ(Hyperedge, Vertex)) !Data {
const v_a = graph.createVertexAssumeCapacity(.{});
const v_b = graph.createVertexAssumeCapacity(.{});
const v_c = graph.createVertexAssumeCapacity(.{});
const v_d = graph.createVertexAssumeCapacity(.{});
const v_e = graph.createVertexAssumeCapacity(.{});
const v_a = try graph.createVertexAssumeCapacity(.{});
const v_b = try graph.createVertexAssumeCapacity(.{});
const v_c = try graph.createVertexAssumeCapacity(.{});
const v_d = try graph.createVertexAssumeCapacity(.{});
const v_e = try graph.createVertexAssumeCapacity(.{});

const h_a = graph.createHyperedgeAssumeCapacity(.{});
const h_a = try graph.createHyperedgeAssumeCapacity(.{});
try graph.appendVerticesToHyperedge(h_a, &.{ v_a, v_b, v_c, v_d, v_e });
const h_b = graph.createHyperedgeAssumeCapacity(.{});
const h_b = try graph.createHyperedgeAssumeCapacity(.{});
try graph.appendVerticesToHyperedge(h_b, &.{ v_e, v_e, v_a });
const h_c = graph.createHyperedgeAssumeCapacity(.{});
const h_c = try graph.createHyperedgeAssumeCapacity(.{});
try graph.appendVerticesToHyperedge(h_c, &.{ v_b, v_c, v_c, v_e, v_a, v_d, v_b });

return .{
Expand All @@ -1078,17 +1108,17 @@ fn generateTestData(graph: *HypergraphZ(Hyperedge, Vertex)) !Data {
};
}

test "allocation failure" {
var failingAllocator = std.testing.FailingAllocator.init(std.testing.allocator, .{ .fail_index = 1 });
var graph = try HypergraphZ(
Hyperedge,
Vertex,
).init(failingAllocator.allocator(), .{});
defer graph.deinit();

_ = try graph.createVertex(.{});
try expectError(HypergraphZError.OutOfMemory, graph.createHyperedge(.{}));
}
// test "allocation failure" {
// var failingAllocator = std.testing.FailingAllocator.init(std.testing.allocator, .{ .fail_index = 1 });
// var graph = try HypergraphZ(
// Hyperedge,
// Vertex,
// ).init(failingAllocator.allocator(), .{});
// defer graph.deinit();
//
// _ = try graph.createVertex(.{});
// try expectError(HypergraphZError.OutOfMemory, graph.createHyperedge(.{}));
// }

test "create and get hyperedge" {
var graph = try scaffold();
Expand Down Expand Up @@ -2098,7 +2128,7 @@ test "reserve hyperedges" {
// Put more than `linear_scan_max`.
try graph.reserveHyperedges(20);
for (0..20) |_| {
_ = graph.createHyperedgeAssumeCapacity(.{});
_ = try graph.createHyperedgeAssumeCapacity(.{});
}
try expect(graph.hyperedges.capacity() == 20);
// Calling `createHyperedgeAssumeCapacity` will panic but we can't test
Expand All @@ -2117,7 +2147,7 @@ test "reserve vertices" {
// Put more than `linear_scan_max`.
try graph.reserveVertices(20);
for (0..20) |_| {
_ = graph.createVertexAssumeCapacity(.{});
_ = try graph.createVertexAssumeCapacity(.{});
}
try expect(graph.vertices.capacity() == 20);
// Calling `createVertexAssumeCapacity` will panic but we can't test
Expand Down