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-rw-r--r--include/shard/MemISAM.h341
1 files changed, 0 insertions, 341 deletions
diff --git a/include/shard/MemISAM.h b/include/shard/MemISAM.h
deleted file mode 100644
index 6962c19..0000000
--- a/include/shard/MemISAM.h
+++ /dev/null
@@ -1,341 +0,0 @@
-/*
- * include/shard/MemISAM.h
- *
- * Copyright (C) 2023 Douglas B. Rumbaugh <drumbaugh@psu.edu>
- * Dong Xie <dongx@psu.edu>
- *
- * All rights reserved. Published under the Modified BSD License.
- *
- */
-#pragma once
-
-#include <vector>
-#include <cassert>
-#include <queue>
-#include <memory>
-
-#include "framework/ShardRequirements.h"
-
-#include "util/bf_config.h"
-#include "psu-ds/PriorityQueue.h"
-#include "util/Cursor.h"
-#include "psu-util/timer.h"
-
-using psudb::CACHELINE_SIZE;
-using psudb::BloomFilter;
-using psudb::PriorityQueue;
-using psudb::queue_record;
-using psudb::Alias;
-
-namespace de {
-
-thread_local size_t mrun_cancelations = 0;
-
-template <RecordInterface R>
-class MemISAM {
-private:
- friend class IRSQuery<R, true>;
- friend class IRSQuery<R, false>;
- friend class ISAMRangeQuery<R>;
-
-typedef decltype(R::key) K;
-typedef decltype(R::value) V;
-
-constexpr static size_t inmem_isam_node_size = 256;
-constexpr static size_t inmem_isam_fanout = inmem_isam_node_size / (sizeof(K) + sizeof(char*));
-
-struct InMemISAMNode {
- K keys[inmem_isam_fanout];
- char* child[inmem_isam_fanout];
-};
-
-constexpr static size_t inmem_isam_leaf_fanout = inmem_isam_node_size / sizeof(R);
-constexpr static size_t inmem_isam_node_keyskip = sizeof(K) * inmem_isam_fanout;
-
-static_assert(sizeof(InMemISAMNode) == inmem_isam_node_size, "node size does not match");
-
-public:
- MemISAM(MutableBuffer<R>* buffer)
- :m_reccnt(0), m_tombstone_cnt(0), m_isam_nodes(nullptr), m_deleted_cnt(0) {
-
- m_bf = new BloomFilter<R>(BF_FPR, buffer->get_tombstone_count(), BF_HASH_FUNCS);
-
- m_alloc_size = (buffer->get_record_count() * sizeof(Wrapped<R>)) + (CACHELINE_SIZE - (buffer->get_record_count() * sizeof(Wrapped<R>)) % CACHELINE_SIZE);
- assert(m_alloc_size % CACHELINE_SIZE == 0);
- m_data = (Wrapped<R>*)std::aligned_alloc(CACHELINE_SIZE, m_alloc_size);
-
- TIMER_INIT();
-
- size_t offset = 0;
- m_reccnt = 0;
- auto base = buffer->get_data();
- auto stop = base + buffer->get_record_count();
-
- TIMER_START();
- std::sort(base, stop, std::less<Wrapped<R>>());
- TIMER_STOP();
- auto sort_time = TIMER_RESULT();
-
- TIMER_START();
- while (base < stop) {
- if (!base->is_tombstone() && (base + 1 < stop)
- && base->rec == (base + 1)->rec && (base + 1)->is_tombstone()) {
- base += 2;
- mrun_cancelations++;
- continue;
- } else if (base->is_deleted()) {
- base += 1;
- continue;
- }
-
- // FIXME: this shouldn't be necessary, but the tagged record
- // bypass doesn't seem to be working on this code-path, so this
- // ensures that tagged records from the buffer are able to be
- // dropped, eventually. It should only need to be &= 1
- base->header &= 3;
- m_data[m_reccnt++] = *base;
- if (m_bf && base->is_tombstone()) {
- ++m_tombstone_cnt;
- m_bf->insert(base->rec);
- }
-
- base++;
- }
- TIMER_STOP();
- auto copy_time = TIMER_RESULT();
-
- TIMER_START();
- if (m_reccnt > 0) {
- build_internal_levels();
- }
- TIMER_STOP();
- auto level_time = TIMER_RESULT();
- }
-
- MemISAM(MemISAM** runs, size_t len)
- : m_reccnt(0), m_tombstone_cnt(0), m_deleted_cnt(0), m_isam_nodes(nullptr) {
- std::vector<Cursor<Wrapped<R>>> cursors;
- cursors.reserve(len);
-
- PriorityQueue<Wrapped<R>> pq(len);
-
- size_t attemp_reccnt = 0;
- size_t tombstone_count = 0;
-
- for (size_t i = 0; i < len; ++i) {
- if (runs[i]) {
- auto base = runs[i]->get_data();
- cursors.emplace_back(Cursor{base, base + runs[i]->get_record_count(), 0, runs[i]->get_record_count()});
- attemp_reccnt += runs[i]->get_record_count();
- tombstone_count += runs[i]->get_tombstone_count();
- pq.push(cursors[i].ptr, i);
- } else {
- cursors.emplace_back(Cursor<Wrapped<R>>{nullptr, nullptr, 0, 0});
- }
- }
-
- m_bf = new BloomFilter<R>(BF_FPR, tombstone_count, BF_HASH_FUNCS);
-
- m_alloc_size = (attemp_reccnt * sizeof(Wrapped<R>)) + (CACHELINE_SIZE - (attemp_reccnt * sizeof(Wrapped<R>)) % CACHELINE_SIZE);
- assert(m_alloc_size % CACHELINE_SIZE == 0);
- m_data = (Wrapped<R>*)std::aligned_alloc(CACHELINE_SIZE, m_alloc_size);
-
- size_t offset = 0;
-
- while (pq.size()) {
- auto now = pq.peek();
- auto next = pq.size() > 1 ? pq.peek(1) : queue_record<Wrapped<R>>{nullptr, 0};
- if (!now.data->is_tombstone() && next.data != nullptr &&
- now.data->rec == next.data->rec && next.data->is_tombstone()) {
-
- pq.pop(); pq.pop();
- auto& cursor1 = cursors[now.version];
- auto& cursor2 = cursors[next.version];
- if (advance_cursor(cursor1)) pq.push(cursor1.ptr, now.version);
- if (advance_cursor(cursor2)) pq.push(cursor2.ptr, next.version);
- } else {
- auto& cursor = cursors[now.version];
- if (!cursor.ptr->is_deleted()) {
- m_data[m_reccnt++] = *cursor.ptr;
- if (cursor.ptr->is_tombstone()) {
- ++m_tombstone_cnt;
- m_bf->insert(cursor.ptr->rec);
- }
- }
- pq.pop();
-
- if (advance_cursor(cursor)) pq.push(cursor.ptr, now.version);
- }
- }
-
- if (m_reccnt > 0) {
- build_internal_levels();
- }
- }
-
- ~MemISAM() {
- if (m_data) free(m_data);
- if (m_isam_nodes) free(m_isam_nodes);
- if (m_bf) delete m_bf;
- }
-
- Wrapped<R> *point_lookup(const R &rec, bool filter=false) {
- if (filter && !m_bf->lookup(rec)) {
- return nullptr;
- }
-
- size_t idx = get_lower_bound(rec.key);
- if (idx >= m_reccnt) {
- return nullptr;
- }
-
- while (idx < m_reccnt && m_data[idx].rec < rec) ++idx;
-
- if (m_data[idx].rec == rec) {
- return m_data + idx;
- }
-
- return nullptr;
- }
-
- Wrapped<R>* get_data() const {
- return m_data;
- }
-
- size_t get_record_count() const {
- return m_reccnt;
- }
-
- size_t get_tombstone_count() const {
- return m_tombstone_cnt;
- }
-
- const Wrapped<R>* get_record_at(size_t idx) const {
- return (idx < m_reccnt) ? m_data + idx : nullptr;
- }
-
- size_t get_memory_usage() {
- return m_internal_node_cnt * inmem_isam_node_size + m_alloc_size;
- }
-
- size_t get_aux_memory_usage() {
- return 0;
- }
-
-private:
- size_t get_lower_bound(const K& key) const {
- const InMemISAMNode* now = m_root;
- while (!is_leaf(reinterpret_cast<const char*>(now))) {
- const InMemISAMNode* next = nullptr;
- for (size_t i = 0; i < inmem_isam_fanout - 1; ++i) {
- if (now->child[i + 1] == nullptr || key <= now->keys[i]) {
- next = reinterpret_cast<InMemISAMNode*>(now->child[i]);
- break;
- }
- }
-
- now = next ? next : reinterpret_cast<const InMemISAMNode*>(now->child[inmem_isam_fanout - 1]);
- }
-
- const Wrapped<R>* pos = reinterpret_cast<const Wrapped<R>*>(now);
- while (pos < m_data + m_reccnt && pos->rec.key < key) pos++;
-
- return pos - m_data;
- }
-
- size_t get_upper_bound(const K& key) const {
- const InMemISAMNode* now = m_root;
- while (!is_leaf(reinterpret_cast<const char*>(now))) {
- const InMemISAMNode* next = nullptr;
- for (size_t i = 0; i < inmem_isam_fanout - 1; ++i) {
- if (now->child[i + 1] == nullptr || key < now->keys[i]) {
- next = reinterpret_cast<InMemISAMNode*>(now->child[i]);
- break;
- }
- }
-
- now = next ? next : reinterpret_cast<const InMemISAMNode*>(now->child[inmem_isam_fanout - 1]);
- }
-
- const Wrapped<R>* pos = reinterpret_cast<const Wrapped<R>*>(now);
- while (pos < m_data + m_reccnt && pos->rec.key <= key) pos++;
-
- return pos - m_data;
- }
-
- void build_internal_levels() {
- size_t n_leaf_nodes = m_reccnt / inmem_isam_leaf_fanout + (m_reccnt % inmem_isam_leaf_fanout != 0);
- size_t level_node_cnt = n_leaf_nodes;
- size_t node_cnt = 0;
- do {
- level_node_cnt = level_node_cnt / inmem_isam_fanout + (level_node_cnt % inmem_isam_fanout != 0);
- node_cnt += level_node_cnt;
- } while (level_node_cnt > 1);
-
- m_alloc_size = (node_cnt * inmem_isam_node_size) + (CACHELINE_SIZE - (node_cnt * inmem_isam_node_size) % CACHELINE_SIZE);
- assert(m_alloc_size % CACHELINE_SIZE == 0);
-
- m_isam_nodes = (InMemISAMNode*)std::aligned_alloc(CACHELINE_SIZE, m_alloc_size);
- m_internal_node_cnt = node_cnt;
- memset(m_isam_nodes, 0, node_cnt * inmem_isam_node_size);
-
- InMemISAMNode* current_node = m_isam_nodes;
-
- const Wrapped<R>* leaf_base = m_data;
- const Wrapped<R>* leaf_stop = m_data + m_reccnt;
- while (leaf_base < leaf_stop) {
- size_t fanout = 0;
- for (size_t i = 0; i < inmem_isam_fanout; ++i) {
- auto rec_ptr = leaf_base + inmem_isam_leaf_fanout * i;
- if (rec_ptr >= leaf_stop) break;
- const Wrapped<R>* sep_key = std::min(rec_ptr + inmem_isam_leaf_fanout - 1, leaf_stop - 1);
- current_node->keys[i] = sep_key->rec.key;
- current_node->child[i] = (char*)rec_ptr;
- ++fanout;
- }
- current_node++;
- leaf_base += fanout * inmem_isam_leaf_fanout;
- }
-
- auto level_start = m_isam_nodes;
- auto level_stop = current_node;
- auto current_level_node_cnt = level_stop - level_start;
- while (current_level_node_cnt > 1) {
- auto now = level_start;
- while (now < level_stop) {
- size_t child_cnt = 0;
- for (size_t i = 0; i < inmem_isam_fanout; ++i) {
- auto node_ptr = now + i;
- ++child_cnt;
- if (node_ptr >= level_stop) break;
- current_node->keys[i] = node_ptr->keys[inmem_isam_fanout - 1];
- current_node->child[i] = (char*)node_ptr;
- }
- now += child_cnt;
- current_node++;
- }
- level_start = level_stop;
- level_stop = current_node;
- current_level_node_cnt = level_stop - level_start;
- }
-
- assert(current_level_node_cnt == 1);
- m_root = level_start;
- }
-
- bool is_leaf(const char* ptr) const {
- return ptr >= (const char*)m_data && ptr < (const char*)(m_data + m_reccnt);
- }
-
- // Members: sorted data, internal ISAM levels, reccnt;
- Wrapped<R>* m_data;
- psudb::BloomFilter<R> *m_bf;
- InMemISAMNode* m_isam_nodes;
- InMemISAMNode* m_root;
- size_t m_reccnt;
- size_t m_tombstone_cnt;
- size_t m_internal_node_cnt;
- size_t m_deleted_cnt;
- size_t m_alloc_size;
-};
-}