Cleaned up shard files (except VPTree)

Cleaned up shard implementations, fixed a few bugs, and set up some
tests. There's still some work to be done in creating tests for the
weighted sampling operations for the alias and aug btree shards.

1 files changed, 45 insertions, 95 deletions

diff --git a/include/shard/PGM.h b/include/shard/PGM.h
index 13db26a..8031870 100644
--- a/include/shard/PGM.h
+++ b/include/shard/PGM.h
@@ -14,24 +14,19 @@
 
 
 #include <vector>
-#include <cassert>
-#include <queue>
-#include <memory>
-#include <concepts>
 
 #include "framework/ShardRequirements.h"
 
 #include "pgm/pgm_index.hpp"
-#include "psu-ds/PriorityQueue.h"
-#include "util/Cursor.h"
 #include "psu-ds/BloomFilter.h"
+#include "util/SortedMerge.h"
 #include "util/bf_config.h"
 
 using psudb::CACHELINE_SIZE;
 using psudb::BloomFilter;
 using psudb::PriorityQueue;
 using psudb::queue_record;
-using psudb::Alias;
+using psudb::byte;
 
 namespace de {
 
@@ -41,111 +36,65 @@ private:
     typedef decltype(R::key) K;
     typedef decltype(R::value) V;
 
-
 public:
-    PGM(MutableBuffer<R>* buffer)
-    : m_reccnt(0), m_tombstone_cnt(0) {
-
-        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);
-        std::vector<K> keys;
-
-        size_t offset = 0;
-        m_reccnt = 0;
-        auto base = buffer->get_data();
-        auto stop = base + buffer->get_record_count();
+    PGM(BufferView<R> buffer)
+        : m_data(nullptr)
+        , m_bf(new BloomFilter<R>(BF_FPR, buffer.get_tombstone_count(), BF_HASH_FUNCS))
+        , m_reccnt(0)
+        , m_tombstone_cnt(0)
+        , m_alloc_size(0) {
+
+        m_alloc_size = psudb::sf_aligned_alloc(CACHELINE_SIZE, 
+                                               buffer.get_record_count() * 
+                                                 sizeof(Wrapped<R>), 
+                                               (byte**) &m_data);
+        auto res = sorted_array_from_bufferview<R>(std::move(buffer), m_data, m_bf);
+        m_reccnt = res.record_count;
+        m_tombstone_cnt = res.tombstone_count;
 
-        std::sort(base, stop, std::less<Wrapped<R>>());
-
-        K min_key = base->rec.key;
-        K max_key = (stop - 1)->rec.key;
-
-        while (base < stop) {
-            if (!(base->is_tombstone()) && (base + 1) < stop) {
-                if (base->rec == (base + 1)->rec && (base + 1)->is_tombstone()) {
-                    base += 2;
-                    continue;
-                }
-            } else if (base->is_deleted()) {
-                base += 1;
-                continue;
+        if (m_reccnt > 0) {
+            std::vector<K> keys;
+            for (size_t i=0; i<m_reccnt; i++) {
+                keys.emplace_back(m_data[i].rec.key);
             }
 
-            // 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;
-            keys.emplace_back(base->rec.key);
-            base++;
-        }
-
-        if (m_reccnt > 0) {
             m_pgm = pgm::PGMIndex<K, epsilon>(keys);
         }
     }
 
-    PGM(PGM** shards, size_t len)
-    : m_reccnt(0), m_tombstone_cnt(0) {
-        std::vector<Cursor<Wrapped<R>>> cursors;
-        cursors.reserve(len);
-
-        PriorityQueue<Wrapped<R>> pq(len);
-
+    PGM(std::vector<PGM*> shards)
+        : m_data(nullptr)
+        , m_bf(nullptr)
+        , m_reccnt(0)
+        , m_tombstone_cnt(0)
+        , m_alloc_size(0) {
+        
         size_t attemp_reccnt = 0;
         size_t tombstone_count = 0;
-        
-        for (size_t i = 0; i < len; ++i) {
-            if (shards[i]) {
-                auto base = shards[i]->get_data();
-                cursors.emplace_back(Cursor{base, base + shards[i]->get_record_count(), 0, shards[i]->get_record_count()});
-                attemp_reccnt += shards[i]->get_record_count();
-                tombstone_count += shards[i]->get_tombstone_count();
-                pq.push(cursors[i].ptr, i);
-
-            } else {
-                cursors.emplace_back(Cursor<Wrapped<R>>{nullptr, nullptr, 0, 0});
-            }
-        }
+        auto cursors = build_cursor_vec<R, PGM>(shards, &attemp_reccnt, &tombstone_count);
 
-        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);
-
-        std::vector<K> keys;
-
-        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<Wrapped<R>>(cursor1)) pq.push(cursor1.ptr, now.version);
-                if (advance_cursor<Wrapped<R>>(cursor2)) pq.push(cursor2.ptr, next.version);
-            } else {
-                auto& cursor = cursors[now.version];
-                if (!cursor.ptr->is_deleted()) {
-                    m_data[m_reccnt++] = *cursor.ptr;
-                    keys.emplace_back(cursor.ptr->rec.key);
-                }
-                pq.pop();
-                
-                if (advance_cursor<Wrapped<R>>(cursor)) pq.push(cursor.ptr, now.version);
-            }
-        }
+        m_bf = new BloomFilter<R>(BF_FPR, tombstone_count, BF_HASH_FUNCS);
+        m_alloc_size = psudb::sf_aligned_alloc(CACHELINE_SIZE, 
+                                               attemp_reccnt * sizeof(Wrapped<R>),
+                                               (byte **) &m_data);
+
+        auto res = sorted_array_merge<R>(cursors, m_data, m_bf);
+        m_reccnt = res.record_count;
+        m_tombstone_cnt = res.tombstone_count;
 
         if (m_reccnt > 0) {
+            std::vector<K> keys;
+            for (size_t i=0; i<m_reccnt; i++) {
+                keys.emplace_back(m_data[i].rec.key);
+            }
+
             m_pgm = pgm::PGMIndex<K, epsilon>(keys);
         }
    }
 
     ~PGM() {
-        if (m_data) free(m_data);
+        free(m_data);
+        delete m_bf;
     }
 
     Wrapped<R> *point_lookup(const R &rec, bool filter=false) {
@@ -186,7 +135,7 @@ public:
     }
 
     size_t get_aux_memory_usage() {
-        return 0;
+        return (m_bf) ? m_bf->memory_usage() : 0;
     }
 
     size_t get_lower_bound(const K& key) const {
@@ -228,6 +177,7 @@ public:
 
 private:
     Wrapped<R>* m_data;
+    BloomFilter<R> *m_bf;
     size_t m_reccnt;
     size_t m_tombstone_cnt;
     size_t m_alloc_size;