/
db.go
247 lines (210 loc) · 5.65 KB
/
db.go
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package db
import (
"context"
"errors"
"fmt"
"log"
"github.com/RoaringBitmap/roaring"
"github.com/sunby/kaer/config"
"go.mongodb.org/mongo-driver/bson"
"go.mongodb.org/mongo-driver/bson/primitive"
"go.mongodb.org/mongo-driver/mongo"
"go.mongodb.org/mongo-driver/mongo/options"
)
const (
InternalDocName = "_m_doc"
InternalIdName = "_m_id"
InternalEmbeddingName = "_m_embedding"
MetaPersistBatch = 1000
)
var (
ErrCollectionNotFound = errors.New("collection not found")
ErrFieldLengthMismatch = errors.New("documents and metadatas are mismatch")
ErrMetaCorrupted = errors.New("meta corrupted")
)
type Data struct {
documents []string
metadatas []bson.M
}
func NewData() *Data {
return &Data{}
}
func (d *Data) Documents(documents []string) *Data {
d.documents = documents
return d
}
func (d *Data) Metadatas(metadatas []bson.M) *Data {
d.metadatas = metadatas
return d
}
type Collection struct {
*mongo.Collection
name string
index *HNSWIndex
embedding *CohereEmbedding
id uint32
nextPersistId uint32
meta *Meta
cfg *config.Config
}
func (c *Collection) Insert(data *Data) error {
if len(data.documents) != len(data.metadatas) {
return ErrFieldLengthMismatch
}
log.Printf("embdedding: %v", c.embedding)
embeddings, err := c.embedding.GetEmbedding(data.documents)
if err != nil {
return err
}
// insert into document database
var insertions []interface{}
for i, doc := range data.metadatas {
doc[InternalDocName] = data.documents[i]
c.id++
doc[InternalIdName] = c.id
doc[InternalEmbeddingName] = embeddings[i]
insertions = append(insertions, doc)
}
_, err = c.InsertMany(context.TODO(), insertions)
if err != nil {
return err
}
// update hnsw index
for i, embedding := range embeddings {
c.index.Add(embedding, data.metadatas[i][InternalIdName].(uint32))
}
if c.id > c.nextPersistId {
// TODO: put this in a background goroutine
c.nextPersistId += MetaPersistBatch
if err := c.persistMeta(context.Background()); err != nil {
return err
}
}
return nil
}
func (c *Collection) persistMeta(ctx context.Context) error {
indexFile := fmt.Sprintf("%s/%s/%s_%d.hnsw", c.cfg.DB.Dir, "index", c.name, c.id)
if err := c.index.Save(indexFile); err != nil {
return err
}
info := newMetaInfo(c.name, indexFile, c.index.ID(), c.index.Size())
return c.meta.Write(ctx, info)
}
func (c *Collection) Query(document string, k int, filter interface{}) ([]bson.M, error) {
// first query in document database
cursor, err := c.Collection.Find(context.TODO(), filter)
if err != nil {
return nil, err
}
var filteredData []bson.M
if err := cursor.All(context.TODO(), &filteredData); err != nil {
return nil, err
}
// create roaring bitmap
bitset := roaring.NewBitmap()
documents := make(map[uint32]bson.M)
for _, doc := range filteredData {
docId := (uint32)(doc[InternalIdName].(int64))
bitset.Add(docId)
documents[docId] = doc
}
embedding, err := c.embedding.GetEmbedding([]string{document})
if err != nil {
return nil, err
}
// search in hnsw index
ids := c.index.Search(embedding[0], 200, k, bitset.Contains)
var res []bson.M
for item := ids.Pop(); item != nil; item = ids.Pop() {
res = append(res, documents[item.ID])
}
return res, nil
}
func (c *Collection) getNextID(ctx context.Context) (uint32, error) {
sortStage := bson.D{{"$sort", bson.D{{InternalIdName, 1}}}}
limitStage := bson.D{{"$limit", 1}}
r, err := c.Collection.Aggregate(ctx, mongo.Pipeline{sortStage, limitStage})
if err != nil {
return 0, err
}
if r.Err() == mongo.ErrNoDocuments {
return 0, nil
}
if r.Err() != nil {
log.Printf("error: %v", r.Err())
} else {
log.Printf("there is no error for aggregate")
}
var res []bson.M
if err := r.All(ctx, &res); err != nil {
return 0, err
}
if len(res) == 0 {
return 0, nil
}
log.Printf("max id: %d", res[0][InternalIdName].(int64))
return (uint32)(res[0][InternalIdName].(int64)), nil
}
func (c *Collection) loadIndexIfExists(ctx context.Context) error {
m, err := c.meta.Read(ctx, c.name)
if err == mongo.ErrNoDocuments {
c.index = NewHNSWIndex(&c.cfg.HNSW, config.CohereModel2Dim[c.cfg.Cohere.Model])
return nil
}
index, err := NewHNSWIndexFromFile(m.hnswFile, m.hnswSize, m.hnswId)
if err != nil {
return err
}
c.index = index
return nil
}
func (c *Collection) updateIndexFromLastId(ctx context.Context) error {
// find id >= lastIndexId by sort
filter := bson.D{{InternalIdName, bson.D{{"$gt", c.index.ID()}}}}
cursor, err := c.Collection.Find(ctx, filter, options.Find().SetSort(bson.D{{InternalIdName, 1}}))
if err != nil {
return err
}
for cursor.Next(ctx) {
var doc bson.M
if err := cursor.Decode(&doc); err != nil {
return err
}
c.index.Add(Convert2Float32(doc[InternalEmbeddingName].(primitive.A)), (uint32)(doc[InternalIdName].(int64)))
}
return nil
}
func (c *Collection) init(ctx context.Context) error {
id, err := c.getNextID(ctx)
if err != nil {
return err
}
c.id = id
c.nextPersistId = c.id + MetaPersistBatch
if err := c.loadIndexIfExists(ctx); err != nil {
return err
}
if err := c.updateIndexFromLastId(ctx); err != nil {
return err
}
return nil
}
func NewCollection(ctx context.Context, meta *Meta, collection *mongo.Collection, name string, cfg *config.Config) (*Collection, error) {
embedding, err := NewCohereEmbedding(&cfg.Cohere)
if err != nil {
return nil, err
}
c := &Collection{
Collection: collection,
index: NewHNSWIndex(&cfg.HNSW, config.CohereModel2Dim[cfg.Cohere.Model]),
name: name,
embedding: embedding,
meta: meta,
cfg: cfg,
}
err = c.init(ctx)
if err != nil {
return nil, err
}
return c, nil
}