642 lines
26 KiB
Rust
642 lines
26 KiB
Rust
use std::borrow::Cow;
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use std::fs::File;
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use std::io::{Read, Seek, SeekFrom};
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use std::iter::Peekable;
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use std::time::Instant;
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use anyhow::{anyhow, Context};
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use grenad::CompressionType;
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use log::info;
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use roaring::RoaringBitmap;
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use serde_json::{Map, Value};
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use crate::{Index, BEU32, MergeFn, FieldsIdsMap, ExternalDocumentsIds, FieldId};
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use crate::update::{AvailableDocumentsIds, UpdateIndexingStep};
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use super::merge_function::merge_two_obkvs;
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use super::{create_writer, create_sorter, IndexDocumentsMethod};
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const DEFAULT_PRIMARY_KEY_NAME: &str = "id";
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pub struct TransformOutput {
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pub primary_key: String,
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pub fields_ids_map: FieldsIdsMap,
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pub external_documents_ids: ExternalDocumentsIds<'static>,
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pub new_documents_ids: RoaringBitmap,
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pub replaced_documents_ids: RoaringBitmap,
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pub documents_count: usize,
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pub documents_file: File,
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}
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/// Extract the external ids, deduplicate and compute the new internal documents ids
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/// and fields ids, writing all the documents under their internal ids into a final file.
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///
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/// Outputs the new `FieldsIdsMap`, the new `UsersIdsDocumentsIds` map, the new documents ids,
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/// the replaced documents ids, the number of documents in this update and the file
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/// containing all those documents.
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pub struct Transform<'t, 'i> {
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pub rtxn: &'t heed::RoTxn<'i>,
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pub index: &'i Index,
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pub log_every_n: Option<usize>,
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pub chunk_compression_type: CompressionType,
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pub chunk_compression_level: Option<u32>,
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pub chunk_fusing_shrink_size: Option<u64>,
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pub max_nb_chunks: Option<usize>,
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pub max_memory: Option<usize>,
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pub index_documents_method: IndexDocumentsMethod,
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pub autogenerate_docids: bool,
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}
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impl Transform<'_, '_> {
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pub fn output_from_json<R, F>(self, reader: R, progress_callback: F) -> anyhow::Result<TransformOutput>
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where
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R: Read,
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F: Fn(UpdateIndexingStep) + Sync,
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{
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self.output_from_generic_json(reader, false, progress_callback)
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}
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pub fn output_from_json_stream<R, F>(self, reader: R, progress_callback: F) -> anyhow::Result<TransformOutput>
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where
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R: Read,
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F: Fn(UpdateIndexingStep) + Sync,
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{
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self.output_from_generic_json(reader, true, progress_callback)
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}
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fn output_from_generic_json<R, F>(
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self,
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reader: R,
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is_stream: bool,
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progress_callback: F,
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) -> anyhow::Result<TransformOutput>
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where
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R: Read,
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F: Fn(UpdateIndexingStep) + Sync,
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{
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let mut fields_ids_map = self.index.fields_ids_map(self.rtxn)?;
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let external_documents_ids = self.index.external_documents_ids(self.rtxn).unwrap();
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// Deserialize the whole batch of documents in memory.
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let mut documents: Peekable<Box<dyn Iterator<Item=serde_json::Result<Map<String, Value>>>>> = if is_stream {
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let iter = serde_json::Deserializer::from_reader(reader).into_iter();
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let iter = Box::new(iter) as Box<dyn Iterator<Item=_>>;
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iter.peekable()
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} else {
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let vec: Vec<_> = serde_json::from_reader(reader)?;
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let iter = vec.into_iter().map(Ok);
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let iter = Box::new(iter) as Box<dyn Iterator<Item=_>>;
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iter.peekable()
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};
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// We extract the primary key from the first document in
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// the batch if it hasn't already been defined in the index
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let first = documents.peek().and_then(|r| r.as_ref().ok());
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let alternative_name = first.and_then(|doc| doc.keys().find(|k| k.contains(DEFAULT_PRIMARY_KEY_NAME)).cloned());
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let (primary_key_id, primary_key) = compute_primary_key_pair(
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self.index.primary_key(self.rtxn)?,
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&mut fields_ids_map,
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alternative_name,
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self.autogenerate_docids
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)?;
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if documents.peek().is_none() {
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return Ok(TransformOutput {
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primary_key,
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fields_ids_map,
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external_documents_ids: ExternalDocumentsIds::default(),
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new_documents_ids: RoaringBitmap::new(),
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replaced_documents_ids: RoaringBitmap::new(),
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documents_count: 0,
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documents_file: tempfile::tempfile()?,
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});
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}
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// We must choose the appropriate merge function for when two or more documents
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// with the same user id must be merged or fully replaced in the same batch.
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let merge_function = match self.index_documents_method {
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IndexDocumentsMethod::ReplaceDocuments => keep_latest_obkv,
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IndexDocumentsMethod::UpdateDocuments => merge_obkvs,
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};
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// We initialize the sorter with the user indexing settings.
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let mut sorter = create_sorter(
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merge_function,
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self.chunk_compression_type,
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self.chunk_compression_level,
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self.chunk_fusing_shrink_size,
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self.max_nb_chunks,
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self.max_memory,
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);
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let mut json_buffer = Vec::new();
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let mut obkv_buffer = Vec::new();
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let mut uuid_buffer = [0; uuid::adapter::Hyphenated::LENGTH];
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let mut documents_count = 0;
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for result in documents {
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let document = result?;
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if self.log_every_n.map_or(false, |len| documents_count % len == 0) {
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progress_callback(UpdateIndexingStep::TransformFromUserIntoGenericFormat {
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documents_seen: documents_count,
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});
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}
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obkv_buffer.clear();
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let mut writer = obkv::KvWriter::new(&mut obkv_buffer);
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// We prepare the fields ids map with the documents keys.
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for (key, _value) in &document {
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fields_ids_map.insert(&key).context("field id limit reached")?;
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}
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// We retrieve the user id from the document based on the primary key name,
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// if the document id isn't present we generate a uuid.
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let external_id = match document.get(&primary_key) {
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Some(value) => match value {
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Value::String(string) => Cow::Borrowed(string.as_str()),
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Value::Number(number) => Cow::Owned(number.to_string()),
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_ => return Err(anyhow!("documents ids must be either strings or numbers")),
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},
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None => {
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if !self.autogenerate_docids {
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return Err(anyhow!("missing primary key"));
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}
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let uuid = uuid::Uuid::new_v4().to_hyphenated().encode_lower(&mut uuid_buffer);
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Cow::Borrowed(uuid)
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},
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};
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// We iterate in the fields ids ordered.
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for (field_id, name) in fields_ids_map.iter() {
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json_buffer.clear();
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// We try to extract the value from the document and if we don't find anything
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// and this should be the document id we return the one we generated.
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if let Some(value) = document.get(name) {
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// We serialize the attribute values.
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serde_json::to_writer(&mut json_buffer, value)?;
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writer.insert(field_id, &json_buffer)?;
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}
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else if field_id == primary_key_id {
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// We validate the document id [a-zA-Z0-9\-_].
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let external_id = match validate_document_id(&external_id) {
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Some(valid) => valid,
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None => return Err(anyhow!("invalid document id: {:?}", external_id)),
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};
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// We serialize the document id.
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serde_json::to_writer(&mut json_buffer, &external_id)?;
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writer.insert(field_id, &json_buffer)?;
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}
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}
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// We use the extracted/generated user id as the key for this document.
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sorter.insert(external_id.as_bytes(), &obkv_buffer)?;
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documents_count += 1;
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}
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progress_callback(UpdateIndexingStep::TransformFromUserIntoGenericFormat {
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documents_seen: documents_count,
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});
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// Now that we have a valid sorter that contains the user id and the obkv we
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// give it to the last transforming function which returns the TransformOutput.
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self.output_from_sorter(
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sorter,
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primary_key,
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fields_ids_map,
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documents_count,
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external_documents_ids,
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progress_callback,
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)
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}
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pub fn output_from_csv<R, F>(self, reader: R, progress_callback: F) -> anyhow::Result<TransformOutput>
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where
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R: Read,
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F: Fn(UpdateIndexingStep) + Sync,
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{
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let mut fields_ids_map = self.index.fields_ids_map(self.rtxn)?;
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let external_documents_ids = self.index.external_documents_ids(self.rtxn).unwrap();
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let mut csv = csv::Reader::from_reader(reader);
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let headers = csv.headers()?;
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let mut fields_ids = Vec::new();
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// Generate the new fields ids based on the current fields ids and this CSV headers.
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for (i, header) in headers.iter().enumerate() {
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let id = fields_ids_map.insert(header).context("field id limit reached)")?;
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fields_ids.push((id, i));
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}
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// Extract the position of the primary key in the current headers, None if not found.
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let primary_key_pos = match self.index.primary_key(self.rtxn)? {
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Some(primary_key) => {
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// The primary key is known so we must find the position in the CSV headers.
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headers.iter().position(|h| h == primary_key)
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},
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None => headers.iter().position(|h| h.contains("id")),
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};
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// Returns the field id in the fields ids map, create an "id" field
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// in case it is not in the current headers.
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let alternative_name = primary_key_pos.map(|pos| headers[pos].to_string());
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let (primary_key_id, _) = compute_primary_key_pair(
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self.index.primary_key(self.rtxn)?,
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&mut fields_ids_map,
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alternative_name,
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self.autogenerate_docids
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)?;
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// The primary key field is not present in the header, so we need to create it.
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if primary_key_pos.is_none() {
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fields_ids.push((primary_key_id, usize::max_value()));
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}
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// We sort the fields ids by the fields ids map id, this way we are sure to iterate over
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// the records fields in the fields ids map order and correctly generate the obkv.
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fields_ids.sort_unstable_by_key(|(field_id, _)| *field_id);
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// We initialize the sorter with the user indexing settings.
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let mut sorter = create_sorter(
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keep_latest_obkv,
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self.chunk_compression_type,
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self.chunk_compression_level,
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self.chunk_fusing_shrink_size,
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self.max_nb_chunks,
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self.max_memory,
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);
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// We write into the sorter to merge and deduplicate the documents
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// based on the external ids.
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let mut json_buffer = Vec::new();
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let mut obkv_buffer = Vec::new();
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let mut uuid_buffer = [0; uuid::adapter::Hyphenated::LENGTH];
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let mut documents_count = 0;
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let mut record = csv::StringRecord::new();
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while csv.read_record(&mut record)? {
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obkv_buffer.clear();
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let mut writer = obkv::KvWriter::new(&mut obkv_buffer);
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if self.log_every_n.map_or(false, |len| documents_count % len == 0) {
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progress_callback(UpdateIndexingStep::TransformFromUserIntoGenericFormat {
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documents_seen: documents_count,
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});
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}
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// We extract the user id if we know where it is or generate an UUID V4 otherwise.
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let external_id = match primary_key_pos {
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Some(pos) => {
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let external_id = &record[pos];
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// We validate the document id [a-zA-Z0-9\-_].
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match validate_document_id(&external_id) {
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Some(valid) => valid,
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None => return Err(anyhow!("invalid document id: {:?}", external_id)),
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}
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},
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None => uuid::Uuid::new_v4().to_hyphenated().encode_lower(&mut uuid_buffer),
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};
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// When the primary_key_field_id is found in the fields ids list
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// we return the generated document id instead of the record field.
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let iter = fields_ids.iter()
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.map(|(fi, i)| {
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let field = if *fi == primary_key_id { external_id } else { &record[*i] };
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(fi, field)
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});
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// We retrieve the field id based on the fields ids map fields ids order.
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for (field_id, field) in iter {
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// We serialize the attribute values as JSON strings.
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json_buffer.clear();
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serde_json::to_writer(&mut json_buffer, &field)?;
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writer.insert(*field_id, &json_buffer)?;
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}
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// We use the extracted/generated user id as the key for this document.
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sorter.insert(external_id, &obkv_buffer)?;
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documents_count += 1;
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}
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progress_callback(UpdateIndexingStep::TransformFromUserIntoGenericFormat {
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documents_seen: documents_count,
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});
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// Now that we have a valid sorter that contains the user id and the obkv we
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// give it to the last transforming function which returns the TransformOutput.
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let primary_key_name = fields_ids_map
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.name(primary_key_id)
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.map(String::from)
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.expect("Primary key must be present in fields id map");
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self.output_from_sorter(
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sorter,
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primary_key_name,
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fields_ids_map,
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documents_count,
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external_documents_ids,
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progress_callback,
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)
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}
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/// Generate the `TransformOutput` based on the given sorter that can be generated from any
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/// format like CSV, JSON or JSON stream. This sorter must contain a key that is the document
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/// id for the user side and the value must be an obkv where keys are valid fields ids.
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fn output_from_sorter<F>(
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self,
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sorter: grenad::Sorter<MergeFn>,
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primary_key: String,
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fields_ids_map: FieldsIdsMap,
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approximate_number_of_documents: usize,
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mut external_documents_ids: ExternalDocumentsIds<'_>,
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progress_callback: F,
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) -> anyhow::Result<TransformOutput>
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where
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F: Fn(UpdateIndexingStep) + Sync,
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{
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let documents_ids = self.index.documents_ids(self.rtxn)?;
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let mut available_documents_ids = AvailableDocumentsIds::from_documents_ids(&documents_ids);
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// Once we have sort and deduplicated the documents we write them into a final file.
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let mut final_sorter = create_sorter(
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|_docid, _obkvs| Err(anyhow!("cannot merge two documents")),
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self.chunk_compression_type,
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self.chunk_compression_level,
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self.chunk_fusing_shrink_size,
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self.max_nb_chunks,
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self.max_memory,
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);
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let mut new_external_documents_ids_builder = fst::MapBuilder::memory();
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let mut replaced_documents_ids = RoaringBitmap::new();
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let mut new_documents_ids = RoaringBitmap::new();
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let mut obkv_buffer = Vec::new();
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// While we write into final file we get or generate the internal documents ids.
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let mut documents_count = 0;
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let mut iter = sorter.into_iter()?;
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while let Some((external_id, update_obkv)) = iter.next()? {
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if self.log_every_n.map_or(false, |len| documents_count % len == 0) {
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progress_callback(UpdateIndexingStep::ComputeIdsAndMergeDocuments {
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documents_seen: documents_count,
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total_documents: approximate_number_of_documents,
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});
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}
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let (docid, obkv) = match external_documents_ids.get(external_id) {
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Some(docid) => {
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// If we find the user id in the current external documents ids map
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// we use it and insert it in the list of replaced documents.
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replaced_documents_ids.insert(docid);
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// Depending on the update indexing method we will merge
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// the document update with the current document or not.
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match self.index_documents_method {
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IndexDocumentsMethod::ReplaceDocuments => (docid, update_obkv),
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IndexDocumentsMethod::UpdateDocuments => {
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let key = BEU32::new(docid);
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let base_obkv = self.index.documents.get(&self.rtxn, &key)?
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.context("document not found")?;
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let update_obkv = obkv::KvReader::new(update_obkv);
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merge_two_obkvs(base_obkv, update_obkv, &mut obkv_buffer);
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(docid, obkv_buffer.as_slice())
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}
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}
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},
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None => {
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// If this user id is new we add it to the external documents ids map
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// for new ids and into the list of new documents.
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let new_docid = available_documents_ids.next()
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.context("no more available documents ids")?;
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new_external_documents_ids_builder.insert(external_id, new_docid as u64)?;
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new_documents_ids.insert(new_docid);
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(new_docid, update_obkv)
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},
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};
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// We insert the document under the documents ids map into the final file.
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final_sorter.insert(docid.to_be_bytes(), obkv)?;
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documents_count += 1;
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}
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progress_callback(UpdateIndexingStep::ComputeIdsAndMergeDocuments {
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documents_seen: documents_count,
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total_documents: documents_count,
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});
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// We create a final writer to write the new documents in order from the sorter.
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let file = tempfile::tempfile()?;
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let mut writer = create_writer(self.chunk_compression_type, self.chunk_compression_level, file)?;
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// Once we have written all the documents into the final sorter, we write the documents
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// into this writer, extract the file and reset the seek to be able to read it again.
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final_sorter.write_into(&mut writer)?;
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let mut documents_file = writer.into_inner()?;
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documents_file.seek(SeekFrom::Start(0))?;
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let before_docids_merging = Instant::now();
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// We merge the new external ids with existing external documents ids.
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let new_external_documents_ids = new_external_documents_ids_builder.into_map();
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external_documents_ids.insert_ids(&new_external_documents_ids)?;
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info!("Documents external merging took {:.02?}", before_docids_merging.elapsed());
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Ok(TransformOutput {
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primary_key,
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fields_ids_map,
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external_documents_ids: external_documents_ids.into_static(),
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new_documents_ids,
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replaced_documents_ids,
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documents_count,
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documents_file,
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})
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}
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/// Returns a `TransformOutput` with a file that contains the documents of the index
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/// with the attributes reordered accordingly to the `FieldsIdsMap` given as argument.
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// TODO this can be done in parallel by using the rayon `ThreadPool`.
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pub fn remap_index_documents(
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self,
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primary_key: String,
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old_fields_ids_map: FieldsIdsMap,
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new_fields_ids_map: FieldsIdsMap,
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) -> anyhow::Result<TransformOutput>
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{
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let external_documents_ids = self.index.external_documents_ids(self.rtxn)?;
|
|
let documents_ids = self.index.documents_ids(self.rtxn)?;
|
|
let documents_count = documents_ids.len() as usize;
|
|
|
|
// We create a final writer to write the new documents in order from the sorter.
|
|
let file = tempfile::tempfile()?;
|
|
let mut writer = create_writer(self.chunk_compression_type, self.chunk_compression_level, file)?;
|
|
|
|
let mut obkv_buffer = Vec::new();
|
|
for result in self.index.documents.iter(self.rtxn)? {
|
|
let (docid, obkv) = result?;
|
|
let docid = docid.get();
|
|
|
|
obkv_buffer.clear();
|
|
let mut obkv_writer = obkv::KvWriter::new(&mut obkv_buffer);
|
|
|
|
// We iterate over the new `FieldsIdsMap` ids in order and construct the new obkv.
|
|
for (id, name) in new_fields_ids_map.iter() {
|
|
if let Some(val) = old_fields_ids_map.id(name).and_then(|id| obkv.get(id)) {
|
|
obkv_writer.insert(id, val)?;
|
|
}
|
|
}
|
|
|
|
let buffer = obkv_writer.into_inner()?;
|
|
writer.insert(docid.to_be_bytes(), buffer)?;
|
|
}
|
|
|
|
// Once we have written all the documents, we extract
|
|
// the file and reset the seek to be able to read it again.
|
|
let mut documents_file = writer.into_inner()?;
|
|
documents_file.seek(SeekFrom::Start(0))?;
|
|
|
|
Ok(TransformOutput {
|
|
primary_key,
|
|
fields_ids_map: new_fields_ids_map,
|
|
external_documents_ids: external_documents_ids.into_static(),
|
|
new_documents_ids: documents_ids,
|
|
replaced_documents_ids: RoaringBitmap::default(),
|
|
documents_count,
|
|
documents_file,
|
|
})
|
|
}
|
|
}
|
|
|
|
/// Given an optional primary key and an optional alternative name, returns the (field_id, attr_name)
|
|
/// for the primary key according to the following rules:
|
|
/// - if primary_key is `Some`, returns the id and the name, else
|
|
/// - if alternative_name is Some, adds alternative to the fields_ids_map, and returns the pair, else
|
|
/// - if autogenerate_docids is true, insert the default id value in the field ids map ("id") and
|
|
/// returns the pair, else
|
|
/// - returns an error.
|
|
fn compute_primary_key_pair(
|
|
primary_key: Option<&str>,
|
|
fields_ids_map: &mut FieldsIdsMap,
|
|
alternative_name: Option<String>,
|
|
autogenerate_docids: bool,
|
|
) -> anyhow::Result<(FieldId, String)> {
|
|
match primary_key {
|
|
Some(primary_key) => {
|
|
let id = fields_ids_map.id(primary_key).expect("primary key must be present in the fields id map");
|
|
Ok((id, primary_key.to_string()))
|
|
}
|
|
None => {
|
|
let name = match alternative_name {
|
|
Some(key) => key,
|
|
None => {
|
|
if !autogenerate_docids {
|
|
// If there is no primary key in the current document batch, we must
|
|
// return an error and not automatically generate any document id.
|
|
anyhow::bail!("missing primary key")
|
|
}
|
|
DEFAULT_PRIMARY_KEY_NAME.to_string()
|
|
},
|
|
};
|
|
let id = fields_ids_map.insert(&name).context("field id limit reached")?;
|
|
Ok((id, name))
|
|
},
|
|
}
|
|
}
|
|
|
|
/// Only the last value associated with an id is kept.
|
|
fn keep_latest_obkv(_key: &[u8], obkvs: &[Cow<[u8]>]) -> anyhow::Result<Vec<u8>> {
|
|
obkvs.last().context("no last value").map(|last| last.clone().into_owned())
|
|
}
|
|
|
|
/// Merge all the obks in the order we see them.
|
|
fn merge_obkvs(_key: &[u8], obkvs: &[Cow<[u8]>]) -> anyhow::Result<Vec<u8>> {
|
|
let mut iter = obkvs.iter();
|
|
let first = iter.next().map(|b| b.clone().into_owned()).context("no first value")?;
|
|
Ok(iter.fold(first, |acc, current| {
|
|
let first = obkv::KvReader::new(&acc);
|
|
let second = obkv::KvReader::new(current);
|
|
let mut buffer = Vec::new();
|
|
merge_two_obkvs(first, second, &mut buffer);
|
|
buffer
|
|
}))
|
|
}
|
|
|
|
fn validate_document_id(document_id: &str) -> Option<&str> {
|
|
let document_id = document_id.trim();
|
|
Some(document_id).filter(|id| {
|
|
!id.is_empty() && id.chars().all(|c| {
|
|
matches!(c, 'a'..='z' | 'A'..='Z' | '0'..='9' | '-' | '_')
|
|
})
|
|
})
|
|
}
|
|
|
|
#[cfg(test)]
|
|
mod test {
|
|
use super::*;
|
|
|
|
mod compute_primary_key {
|
|
use super::compute_primary_key_pair;
|
|
use super::FieldsIdsMap;
|
|
|
|
#[test]
|
|
#[should_panic]
|
|
fn should_panic_primary_key_not_in_map() {
|
|
let mut fields_map = FieldsIdsMap::new();
|
|
let _result = compute_primary_key_pair(
|
|
Some("toto"),
|
|
&mut fields_map,
|
|
None,
|
|
false);
|
|
}
|
|
|
|
#[test]
|
|
fn should_return_primary_key_if_is_some() {
|
|
let mut fields_map = FieldsIdsMap::new();
|
|
fields_map.insert("toto").unwrap();
|
|
let result = compute_primary_key_pair(
|
|
Some("toto"),
|
|
&mut fields_map,
|
|
Some("tata".to_string()),
|
|
false);
|
|
assert_eq!(result.unwrap(), (0u8, "toto".to_string()));
|
|
assert_eq!(fields_map.len(), 1);
|
|
}
|
|
|
|
#[test]
|
|
fn should_return_alternative_if_primary_is_none() {
|
|
let mut fields_map = FieldsIdsMap::new();
|
|
let result = compute_primary_key_pair(
|
|
None,
|
|
&mut fields_map,
|
|
Some("tata".to_string()),
|
|
false);
|
|
assert_eq!(result.unwrap(), (0u8, "tata".to_string()));
|
|
assert_eq!(fields_map.len(), 1);
|
|
}
|
|
|
|
#[test]
|
|
fn should_return_default_if_both_are_none() {
|
|
let mut fields_map = FieldsIdsMap::new();
|
|
let result = compute_primary_key_pair(
|
|
None,
|
|
&mut fields_map,
|
|
None,
|
|
true);
|
|
assert_eq!(result.unwrap(), (0u8, "id".to_string()));
|
|
assert_eq!(fields_map.len(), 1);
|
|
}
|
|
|
|
#[test]
|
|
fn should_return_err_if_both_are_none_and_recompute_is_false(){
|
|
let mut fields_map = FieldsIdsMap::new();
|
|
let result = compute_primary_key_pair(
|
|
None,
|
|
&mut fields_map,
|
|
None,
|
|
false);
|
|
assert!(result.is_err());
|
|
assert_eq!(fields_map.len(), 0);
|
|
}
|
|
}
|
|
}
|